Wed Jan  8 15:41:35 CST 2020
/study2/emowrap/data/freesurfer/subjects/066
/apps/x86_64_sci7/freesurfer-6.0.0/bin/recon-all
-i /study/emowrap/processed_data/EMOWRAP_Imaging/sub-066/anat/sub-066_T1w_N4Corrected.nii.gz -subjid 066 -all -qcache
subjid 066
setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Actual FREESURFER_HOME /apps/freesurfer-6.0.0/x86_64_sci7
build-stamp.txt: freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c
Linux c137.keck.waisman.wisc.edu 3.10.0-1062.9.1.el7.x86_64 #1 SMP Thu Dec 5 14:44:59 CST 2019 x86_64 x86_64 x86_64 GNU/Linux
cputime      unlimited
filesize     unlimited
datasize     3145728 kbytes
stacksize    unlimited
coredumpsize 0 kbytes
memoryuse    3145728 kbytes
vmemoryuse   3145728 kbytes
descriptors  32767
memorylocked 64 kbytes
maxproc      1030757
maxlocks     unlimited
maxsignal    1030757
maxmessage   819200
maxnice      0
maxrtprio    0
maxrttime    unlimited

              total        used        free      shared  buff/cache   available
Mem:      263971188     9164952   153963964      123804   100842272   253882224
Swap:     268435448       13552   268421896

########################################
program versions used
$Id: recon-all,v 1.580.2.16 2017/01/18 14:11:24 zkaufman Exp $
$Id: mri_motion_correct.fsl,v 1.15 2016/02/16 17:17:20 zkaufman Exp $
mri_convert.bin -all-info
ProgramName: mri_convert.bin  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/08-21:41:35-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $  User: quinlan  Machine: c137.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
FLIRT version 5.5
$Id: talairach_avi,v 1.13 2015/12/23 04:25:17 greve Exp $
mri_convert.bin --version
stable6
ProgramName: tkregister2_cmdl  ProgramArguments: --all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/08-21:41:35-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: tkregister2.c,v 1.132.2.1 2016/08/02 21:17:29 greve Exp $  User: quinlan  Machine: c137.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
Program nu_correct, built from:
Package MNI N3, version 1.12.0, compiled by nicks@terrier (x86_64-unknown-linux-gnu) on 2015-06-19 at 01:25:34
ProgramName: mri_make_uchar  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/08-21:41:36-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_make_uchar.c,v 1.4 2011/03/02 00:04:14 nicks Exp $  User: quinlan  Machine: c137.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_normalize  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/08-21:41:36-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_normalize.c,v 1.88.2.3 2016/12/27 16:47:13 zkaufman Exp $  User: quinlan  Machine: c137.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_watershed  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/08-21:41:36-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_watershed.cpp,v 1.103 2016/06/17 18:00:49 zkaufman Exp $  User: quinlan  Machine: c137.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_gcut  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/08-21:41:36-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_gcut.cpp,v 1.14 2011/03/02 00:04:16 nicks Exp $  User: quinlan  Machine: c137.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_segment  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/08-21:41:36-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_segment.c,v 1.43.2.1 2016/10/27 22:24:52 zkaufman Exp $  User: quinlan  Machine: c137.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_label2label.bin  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/08-21:41:36-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_label2label.c,v 1.48.2.2 2016/12/12 14:15:26 zkaufman Exp $  User: quinlan  Machine: c137.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_em_register  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/08-21:41:36-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_em_register.c,v 1.105.2.1 2016/10/27 22:25:10 zkaufman Exp $  User: quinlan  Machine: c137.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_ca_normalize  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/08-21:41:36-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_ca_normalize.c,v 1.67.2.2 2016/10/27 22:25:09 zkaufman Exp $  User: quinlan  Machine: c137.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_ca_register  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/08-21:41:36-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_ca_register.c,v 1.96.2.3 2016/10/27 22:25:10 zkaufman Exp $  User: quinlan  Machine: c137.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_ca_label  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/08-21:41:36-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_ca_label.c,v 1.113.2.2 2016/10/27 22:25:10 zkaufman Exp $  User: quinlan  Machine: c137.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_pretess  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/08-21:41:36-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_pretess.c,v 1.22 2013/08/30 18:12:25 mreuter Exp $  User: quinlan  Machine: c137.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_fill  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/08-21:41:36-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_fill.c,v 1.119 2011/10/25 14:09:58 fischl Exp $  User: quinlan  Machine: c137.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_tessellate  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/08-21:41:36-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_tessellate.c,v 1.38.2.1 2016/07/26 18:46:38 zkaufman Exp $  User: quinlan  Machine: c137.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_concatenate_lta.bin  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/08-21:41:36-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_concatenate_lta.c,v 1.16 2015/11/21 00:06:20 greve Exp $  User: quinlan  Machine: c137.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_normalize_tp2  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/08-21:41:36-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_normalize_tp2.c,v 1.8 2011/03/02 00:04:23 nicks Exp $  User: quinlan  Machine: c137.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_smooth  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/08-21:41:36-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_smooth.c,v 1.30 2014/01/21 18:48:21 fischl Exp $  User: quinlan  Machine: c137.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_inflate  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/08-21:41:36-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_inflate.c,v 1.45 2016/01/20 23:42:15 greve Exp $  User: quinlan  Machine: c137.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_curvature  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/08-21:41:36-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_curvature.c,v 1.31 2011/03/02 00:04:30 nicks Exp $  User: quinlan  Machine: c137.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_sphere  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/08-21:41:36-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_sphere.c,v 1.61 2016/01/20 23:42:15 greve Exp $  User: quinlan  Machine: c137.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_fix_topology  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/08-21:41:36-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_fix_topology.c,v 1.50.2.1 2016/10/27 22:25:58 zkaufman Exp $  User: quinlan  Machine: c137.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_topo_fixer  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/08-21:41:36-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_topo_fixer.cpp,v 1.29 2011/03/02 00:04:34 nicks Exp $  User: quinlan  Machine: c137.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_ca_label  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/08-21:41:36-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_ca_label.c,v 1.37 2014/02/04 17:46:42 fischl Exp $  User: quinlan  Machine: c137.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_euler_number  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/08-21:41:36-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_euler_number.c,v 1.10 2013/01/14 22:39:14 greve Exp $  User: quinlan  Machine: c137.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_make_surfaces  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/08-21:41:36-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_make_surfaces.c,v 1.164.2.4 2016/12/13 22:26:32 zkaufman Exp $  User: quinlan  Machine: c137.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_register  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/08-21:41:36-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_register.c,v 1.63 2016/01/20 23:43:04 greve Exp $  User: quinlan  Machine: c137.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_volmask  ProgramArguments: --all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/08-21:41:36-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_volmask.cpp,v 1.26.2.2 2016/11/18 20:05:18 zkaufman Exp $  User: quinlan  Machine: c137.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_anatomical_stats  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/08-21:41:36-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_anatomical_stats.c,v 1.79 2016/03/14 15:15:34 greve Exp $  User: quinlan  Machine: c137.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mrisp_paint  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/08-21:41:36-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mrisp_paint.c,v 1.12 2016/03/22 14:47:57 fischl Exp $  User: quinlan  Machine: c137.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_curvature_stats  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/08-21:41:36-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_curvature_stats.c,v 1.65 2015/06/04 20:50:51 nicks Exp $  User: quinlan  Machine: c137.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_calc  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/08-21:41:36-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_calc.c,v 1.54.2.1 2016/09/27 18:51:28 greve Exp $  User: quinlan  Machine: c137.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
$Id: mri_robust_register.cpp,v 1.77 2016/01/20 23:36:17 greve Exp $

ProgramName: mri_robust_register.bin  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/08-21:41:36-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_robust_register.cpp,v 1.77 2016/01/20 23:36:17 greve Exp $  User: quinlan  Machine: c137.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
$Id: mri_robust_template.cpp,v 1.54 2016/05/05 21:17:08 mreuter Exp $

ProgramName: mri_robust_template  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/08-21:41:36-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_robust_template.cpp,v 1.54 2016/05/05 21:17:08 mreuter Exp $  User: quinlan  Machine: c137.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_and  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/08-21:41:36-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_and.c,v 1.4 2011/03/02 00:04:13 nicks Exp $  User: quinlan  Machine: c137.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_or  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/08-21:41:36-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_or.c,v 1.5 2013/03/20 15:03:29 lzollei Exp $  User: quinlan  Machine: c137.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_fuse_segmentations  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/08-21:41:36-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_fuse_segmentations.c,v 1.8 2011/03/02 00:04:15 nicks Exp $  User: quinlan  Machine: c137.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_segstats  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/08-21:41:36-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_segstats.c,v 1.121 2016/05/31 17:27:11 greve Exp $  User: quinlan  Machine: c137.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_relabel_hypointensities  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/08-21:41:36-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_relabel_hypointensities.c,v 1.13 2015/05/15 18:44:10 nicks Exp $  User: quinlan  Machine: c137.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
#######################################
GCADIR /apps/x86_64_sci7/freesurfer-6.0.0/average
GCA RB_all_2016-05-10.vc700.gca
GCASkull RB_all_withskull_2016-05-10.vc700.gca
AvgCurvTif folding.atlas.acfb40.noaparc.i12.2016-08-02.tif
GCSDIR /apps/x86_64_sci7/freesurfer-6.0.0/average
GCS DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs
#######################################
/study2/emowrap/data/freesurfer/subjects/066

 mri_convert /study2/emowrap/processed_data/EMOWRAP_Imaging/sub-066/anat/sub-066_T1w_N4Corrected.nii.gz /study2/emowrap/data/freesurfer/subjects/066/mri/orig/001.mgz

mri_convert.bin /study2/emowrap/processed_data/EMOWRAP_Imaging/sub-066/anat/sub-066_T1w_N4Corrected.nii.gz /study2/emowrap/data/freesurfer/subjects/066/mri/orig/001.mgz
$Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $
reading from /study2/emowrap/processed_data/EMOWRAP_Imaging/sub-066/anat/sub-066_T1w_N4Corrected.nii.gz...
TR=0.00, TE=0.00, TI=0.00, flip angle=0.00
i_ras = (1, 0, 0)
j_ras = (0, 1, 0)
k_ras = (-0, -0, 1)
writing to /study2/emowrap/data/freesurfer/subjects/066/mri/orig/001.mgz...
#--------------------------------------------
#@# MotionCor Wed Jan  8 15:41:48 CST 2020
Found 1 runs
/study2/emowrap/data/freesurfer/subjects/066/mri/orig/001.mgz
Checking for (invalid) multi-frame inputs...
WARNING: only one run found. This is OK, but motion
correction cannot be performed on one run, so I'll
copy the run to rawavg and continue.

 cp /study2/emowrap/data/freesurfer/subjects/066/mri/orig/001.mgz /study2/emowrap/data/freesurfer/subjects/066/mri/rawavg.mgz

/study2/emowrap/data/freesurfer/subjects/066

 mri_convert /study2/emowrap/data/freesurfer/subjects/066/mri/rawavg.mgz /study2/emowrap/data/freesurfer/subjects/066/mri/orig.mgz --conform

mri_convert.bin /study2/emowrap/data/freesurfer/subjects/066/mri/rawavg.mgz /study2/emowrap/data/freesurfer/subjects/066/mri/orig.mgz --conform
$Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $
reading from /study2/emowrap/data/freesurfer/subjects/066/mri/rawavg.mgz...
TR=0.00, TE=0.00, TI=0.00, flip angle=0.00
i_ras = (1, 0, 0)
j_ras = (0, 1, 0)
k_ras = (-0, -0, 1)
changing data type from float to uchar (noscale = 0)...
MRIchangeType: Building histogram
Reslicing using trilinear interpolation
writing to /study2/emowrap/data/freesurfer/subjects/066/mri/orig.mgz...

 mri_add_xform_to_header -c /study2/emowrap/data/freesurfer/subjects/066/mri/transforms/talairach.xfm /study2/emowrap/data/freesurfer/subjects/066/mri/orig.mgz /study2/emowrap/data/freesurfer/subjects/066/mri/orig.mgz

INFO: extension is mgz
#--------------------------------------------
#@# Talairach Wed Jan  8 15:42:06 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/mri

 mri_nu_correct.mni --no-rescale --i orig.mgz --o orig_nu.mgz --n 1 --proto-iters 1000 --distance 50

/study2/emowrap/data/freesurfer/subjects/066/mri
/apps/x86_64_sci7/freesurfer-6.0.0/bin/mri_nu_correct.mni
--no-rescale --i orig.mgz --o orig_nu.mgz --n 1 --proto-iters 1000 --distance 50
nIters 1
$Id: mri_nu_correct.mni,v 1.27 2016/02/26 16:19:49 mreuter Exp $
Linux c137.keck.waisman.wisc.edu 3.10.0-1062.9.1.el7.x86_64 #1 SMP Thu Dec 5 14:44:59 CST 2019 x86_64 x86_64 x86_64 GNU/Linux
Wed Jan  8 15:42:07 CST 2020
Program nu_correct, built from:
Package MNI N3, version 1.12.0, compiled by nicks@terrier (x86_64-unknown-linux-gnu) on 2015-06-19 at 01:25:34
/bin/bc
tmpdir is ./tmp.mri_nu_correct.mni.15050
/study2/emowrap/data/freesurfer/subjects/066/mri
mri_convert orig.mgz ./tmp.mri_nu_correct.mni.15050/nu0.mnc -odt float
mri_convert.bin orig.mgz ./tmp.mri_nu_correct.mni.15050/nu0.mnc -odt float
$Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $
reading from orig.mgz...
TR=0.00, TE=0.00, TI=0.00, flip angle=0.00
i_ras = (-1, 0, 0)
j_ras = (0, 0, -1)
k_ras = (0, 1, 0)
changing data type from uchar to float (noscale = 0)...
writing to ./tmp.mri_nu_correct.mni.15050/nu0.mnc...

--------------------------------------------------------
Iteration 1 Wed Jan  8 15:42:12 CST 2020
nu_correct -clobber ./tmp.mri_nu_correct.mni.15050/nu0.mnc ./tmp.mri_nu_correct.mni.15050/nu1.mnc -tmpdir ./tmp.mri_nu_correct.mni.15050/0/ -iterations 1000 -distance 50
[quinlan@c137.keck.waisman.wisc.edu:/study2/emowrap/data/freesurfer/subjects/066/mri/] [2020-01-08 15:42:12] running:
  /apps/x86_64_sci7/freesurfer-6.0.0/mni/bin/nu_estimate_np_and_em -parzen -log -sharpen 0.15 0.01 -iterations 1000 -stop 0.001 -shrink 4 -auto_mask -nonotify -b_spline 1.0e-7 -distance 50 -quiet -execute -clobber -nokeeptmp -tmpdir ./tmp.mri_nu_correct.mni.15050/0/ ./tmp.mri_nu_correct.mni.15050/nu0.mnc ./tmp.mri_nu_correct.mni.15050/nu1.imp

Processing:.................................................................Done
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Processing:.................................................................Done
Number of iterations: 30
CV of field change: 0.000991351



mri_convert ./tmp.mri_nu_correct.mni.15050/nu1.mnc orig_nu.mgz --like orig.mgz --conform
mri_convert.bin ./tmp.mri_nu_correct.mni.15050/nu1.mnc orig_nu.mgz --like orig.mgz --conform
$Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $
reading from ./tmp.mri_nu_correct.mni.15050/nu1.mnc...
TR=0.00, TE=0.00, TI=0.00, flip angle=0.00
i_ras = (-1, 0, 0)
j_ras = (0, 0, -1)
k_ras = (0, 1, 0)
INFO: transform src into the like-volume: orig.mgz
changing data type from float to uchar (noscale = 0)...
MRIchangeType: Building histogram
writing to orig_nu.mgz...


Wed Jan  8 15:43:46 CST 2020
mri_nu_correct.mni done

 talairach_avi --i orig_nu.mgz --xfm transforms/talairach.auto.xfm

talairach_avi log file is transforms/talairach_avi.log...
Started at Wed Jan 8 15:43:46 CST 2020
Ended   at Wed Jan  8 15:45:02 CST 2020
talairach_avi done

 cp transforms/talairach.auto.xfm transforms/talairach.xfm

#--------------------------------------------
#@# Talairach Failure Detection Wed Jan  8 15:45:04 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/mri

 talairach_afd -T 0.005 -xfm transforms/talairach.xfm

talairach_afd: Talairach Transform: transforms/talairach.xfm OK (p=0.6719, pval=0.3663 >= threshold=0.0050)

 awk -f /apps/x86_64_sci7/freesurfer-6.0.0/bin/extract_talairach_avi_QA.awk /study2/emowrap/data/freesurfer/subjects/066/mri/transforms/talairach_avi.log


 tal_QC_AZS /study2/emowrap/data/freesurfer/subjects/066/mri/transforms/talairach_avi.log

TalAviQA: 0.97109
z-score: -1
#--------------------------------------------
#@# Nu Intensity Correction Wed Jan  8 15:45:04 CST 2020

 mri_nu_correct.mni --i orig.mgz --o nu.mgz --uchar transforms/talairach.xfm --n 2

/study2/emowrap/data/freesurfer/subjects/066/mri
/apps/x86_64_sci7/freesurfer-6.0.0/bin/mri_nu_correct.mni
--i orig.mgz --o nu.mgz --uchar transforms/talairach.xfm --n 2
nIters 2
$Id: mri_nu_correct.mni,v 1.27 2016/02/26 16:19:49 mreuter Exp $
Linux c137.keck.waisman.wisc.edu 3.10.0-1062.9.1.el7.x86_64 #1 SMP Thu Dec 5 14:44:59 CST 2019 x86_64 x86_64 x86_64 GNU/Linux
Wed Jan  8 15:45:04 CST 2020
Program nu_correct, built from:
Package MNI N3, version 1.12.0, compiled by nicks@terrier (x86_64-unknown-linux-gnu) on 2015-06-19 at 01:25:34
/bin/bc
tmpdir is ./tmp.mri_nu_correct.mni.18436
/study2/emowrap/data/freesurfer/subjects/066/mri
mri_convert orig.mgz ./tmp.mri_nu_correct.mni.18436/nu0.mnc -odt float
mri_convert.bin orig.mgz ./tmp.mri_nu_correct.mni.18436/nu0.mnc -odt float
$Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $
reading from orig.mgz...
TR=0.00, TE=0.00, TI=0.00, flip angle=0.00
i_ras = (-1, 0, 0)
j_ras = (0, 0, -1)
k_ras = (0, 1, 0)
changing data type from uchar to float (noscale = 0)...
writing to ./tmp.mri_nu_correct.mni.18436/nu0.mnc...

--------------------------------------------------------
Iteration 1 Wed Jan  8 15:45:10 CST 2020
nu_correct -clobber ./tmp.mri_nu_correct.mni.18436/nu0.mnc ./tmp.mri_nu_correct.mni.18436/nu1.mnc -tmpdir ./tmp.mri_nu_correct.mni.18436/0/
[quinlan@c137.keck.waisman.wisc.edu:/study2/emowrap/data/freesurfer/subjects/066/mri/] [2020-01-08 15:45:10] running:
  /apps/x86_64_sci7/freesurfer-6.0.0/mni/bin/nu_estimate_np_and_em -parzen -log -sharpen 0.15 0.01 -iterations 50 -stop 0.001 -shrink 4 -auto_mask -nonotify -b_spline 1.0e-7 -distance 200 -quiet -execute -clobber -nokeeptmp -tmpdir ./tmp.mri_nu_correct.mni.18436/0/ ./tmp.mri_nu_correct.mni.18436/nu0.mnc ./tmp.mri_nu_correct.mni.18436/nu1.imp

Processing:.................................................................Done
Processing:.................................................................Done
Processing:.................................................................Done
Processing:.................................................................Done
Processing:.................................................................Done
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Processing:.................................................................Done
Processing:.................................................................Done
Processing:.................................................................Done
Number of iterations: 14
CV of field change: 0.000949785


--------------------------------------------------------
Iteration 2 Wed Jan  8 15:46:08 CST 2020
nu_correct -clobber ./tmp.mri_nu_correct.mni.18436/nu1.mnc ./tmp.mri_nu_correct.mni.18436/nu2.mnc -tmpdir ./tmp.mri_nu_correct.mni.18436/1/
[quinlan@c137.keck.waisman.wisc.edu:/study2/emowrap/data/freesurfer/subjects/066/mri/] [2020-01-08 15:46:08] running:
  /apps/x86_64_sci7/freesurfer-6.0.0/mni/bin/nu_estimate_np_and_em -parzen -log -sharpen 0.15 0.01 -iterations 50 -stop 0.001 -shrink 4 -auto_mask -nonotify -b_spline 1.0e-7 -distance 200 -quiet -execute -clobber -nokeeptmp -tmpdir ./tmp.mri_nu_correct.mni.18436/1/ ./tmp.mri_nu_correct.mni.18436/nu1.mnc ./tmp.mri_nu_correct.mni.18436/nu2.imp

Processing:.................................................................Done
Processing:.................................................................Done
Processing:.................................................................Done
Processing:.................................................................Done
Processing:.................................................................Done
Processing:.................................................................Done
Processing:.................................................................Done
Processing:.................................................................Done
Processing:.................................................................Done
Processing:.................................................................Done
Number of iterations: 10
CV of field change: 0.000993099



mri_binarize --i ./tmp.mri_nu_correct.mni.18436/nu2.mnc --min -1 --o ./tmp.mri_nu_correct.mni.18436/ones.mgz

$Id: mri_binarize.c,v 1.43 2016/06/09 20:46:21 greve Exp $
cwd /study2/emowrap/data/freesurfer/subjects/066/mri
cmdline mri_binarize.bin --i ./tmp.mri_nu_correct.mni.18436/nu2.mnc --min -1 --o ./tmp.mri_nu_correct.mni.18436/ones.mgz
sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan

input      ./tmp.mri_nu_correct.mni.18436/nu2.mnc
frame      0
nErode3d   0
nErode2d   0
output     ./tmp.mri_nu_correct.mni.18436/ones.mgz
Binarizing based on threshold
min        -1
max        +infinity
binval        1
binvalnot     0
fstart = 0, fend = 0, nframes = 1
Found 16777216 values in range
Counting number of voxels in first frame
Found 16777216 voxels in final mask
Count: 16777216 16777216.000000 16777216 100.000000
mri_binarize done
mri_segstats --id 1 --seg ./tmp.mri_nu_correct.mni.18436/ones.mgz --i orig.mgz --sum ./tmp.mri_nu_correct.mni.18436/sum.junk --avgwf ./tmp.mri_nu_correct.mni.18436/input.mean.dat

$Id: mri_segstats.c,v 1.121 2016/05/31 17:27:11 greve Exp $
cwd
cmdline mri_segstats --id 1 --seg ./tmp.mri_nu_correct.mni.18436/ones.mgz --i orig.mgz --sum ./tmp.mri_nu_correct.mni.18436/sum.junk --avgwf ./tmp.mri_nu_correct.mni.18436/input.mean.dat
sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
UseRobust  0
Loading ./tmp.mri_nu_correct.mni.18436/ones.mgz
Loading orig.mgz
Voxel Volume is 1 mm^3
Generating list of segmentation ids
Found   1 segmentations
Computing statistics for each segmentation

Reporting on   1 segmentations
Using PrintSegStat
Computing spatial average of each frame
  0
Writing to ./tmp.mri_nu_correct.mni.18436/input.mean.dat
mri_segstats done
mri_segstats --id 1 --seg ./tmp.mri_nu_correct.mni.18436/ones.mgz --i ./tmp.mri_nu_correct.mni.18436/nu2.mnc --sum ./tmp.mri_nu_correct.mni.18436/sum.junk --avgwf ./tmp.mri_nu_correct.mni.18436/output.mean.dat

$Id: mri_segstats.c,v 1.121 2016/05/31 17:27:11 greve Exp $
cwd
cmdline mri_segstats --id 1 --seg ./tmp.mri_nu_correct.mni.18436/ones.mgz --i ./tmp.mri_nu_correct.mni.18436/nu2.mnc --sum ./tmp.mri_nu_correct.mni.18436/sum.junk --avgwf ./tmp.mri_nu_correct.mni.18436/output.mean.dat
sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
UseRobust  0
Loading ./tmp.mri_nu_correct.mni.18436/ones.mgz
Loading ./tmp.mri_nu_correct.mni.18436/nu2.mnc
Voxel Volume is 1 mm^3
Generating list of segmentation ids
Found   1 segmentations
Computing statistics for each segmentation

Reporting on   1 segmentations
Using PrintSegStat
Computing spatial average of each frame
  0
Writing to ./tmp.mri_nu_correct.mni.18436/output.mean.dat
mri_segstats done
mris_calc -o ./tmp.mri_nu_correct.mni.18436/nu2.mnc ./tmp.mri_nu_correct.mni.18436/nu2.mnc mul 1.03743662485663286936
Saving result to './tmp.mri_nu_correct.mni.18436/nu2.mnc' (type = MINC )                       [ ok ]
mri_convert ./tmp.mri_nu_correct.mni.18436/nu2.mnc nu.mgz --like orig.mgz
mri_convert.bin ./tmp.mri_nu_correct.mni.18436/nu2.mnc nu.mgz --like orig.mgz
$Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $
reading from ./tmp.mri_nu_correct.mni.18436/nu2.mnc...
TR=0.00, TE=0.00, TI=0.00, flip angle=0.00
i_ras = (-1, 0, 0)
j_ras = (0, 0, -1)
k_ras = (0, 1, 0)
INFO: transform src into the like-volume: orig.mgz
writing to nu.mgz...
mri_make_uchar nu.mgz transforms/talairach.xfm nu.mgz
type change took 0 minutes and 16 seconds.
mapping ( 6, 76) to ( 3, 110)


Wed Jan  8 15:48:16 CST 2020
mri_nu_correct.mni done

 mri_add_xform_to_header -c /study2/emowrap/data/freesurfer/subjects/066/mri/transforms/talairach.xfm nu.mgz nu.mgz

INFO: extension is mgz
#--------------------------------------------
#@# Intensity Normalization Wed Jan  8 15:48:19 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/mri

 mri_normalize -g 1 -mprage nu.mgz T1.mgz

using max gradient = 1.000
assuming input volume is MGH (Van der Kouwe) MP-RAGE
reading from nu.mgz...
normalizing image...
talairach transform
 1.10262   0.08464   0.07812   4.71271;
-0.10416   0.97799   0.24818  -15.88235;
-0.06952  -0.28738   1.08979  -10.19817;
 0.00000   0.00000   0.00000   1.00000;
processing without aseg, no1d=0
MRInormInit():
INFO: Modifying talairach volume c_(r,a,s) based on average_305
MRInormalize():
MRIsplineNormalize(): npeaks = 18
Starting OpenSpline(): npoints = 18
building Voronoi diagram...
performing soap bubble smoothing, sigma = 8...

Iterating 2 times
---------------------------------
3d normalization pass 1 of 2
white matter peak found at 110
white matter peak found at 109
gm peak at 72 (72), valley at 51 (51)
csf peak at 37, setting threshold to 60
building Voronoi diagram...
performing soap bubble smoothing, sigma = 8...
---------------------------------
3d normalization pass 2 of 2
white matter peak found at 110
white matter peak found at 110
gm peak at 71 (71), valley at 47 (47)
csf peak at 36, setting threshold to 59
building Voronoi diagram...
performing soap bubble smoothing, sigma = 8...
Done iterating ---------------------------------
writing output to T1.mgz
3D bias adjustment took 4 minutes and 0 seconds.
#--------------------------------------------
#@# Skull Stripping Wed Jan  8 15:52:21 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/mri

 mri_em_register -rusage /study2/emowrap/data/freesurfer/subjects/066/touch/rusage.mri_em_register.skull.dat -skull nu.mgz /apps/x86_64_sci7/freesurfer-6.0.0/average/RB_all_withskull_2016-05-10.vc700.gca transforms/talairach_with_skull.lta

aligning to atlas containing skull, setting unknown_nbr_spacing = 5

== Number of threads available to mri_em_register for OpenMP = 1 ==
reading 1 input volumes...
logging results to talairach_with_skull.log
reading '/apps/x86_64_sci7/freesurfer-6.0.0/average/RB_all_withskull_2016-05-10.vc700.gca'...
average std = 22.9   using min determinant for regularization = 52.6
0 singular and 9002 ill-conditioned covariance matrices regularized
reading 'nu.mgz'...
freeing gibbs priors...done.
accounting for voxel sizes in initial transform
bounding unknown intensity as < 8.7 or > 569.1
total sample mean = 77.6 (1399 zeros)
************************************************
spacing=8, using 3243 sample points, tol=1.00e-05...
************************************************
register_mri: find_optimal_transform
find_optimal_transform: nsamples 3243, passno 0, spacing 8
resetting wm mean[0]: 100 --> 108
resetting gm mean[0]: 61 --> 61
input volume #1 is the most T1-like
using real data threshold=7.0
skull bounding box = (49, 50, 23) --> (207, 205, 234)
using (102, 102, 129) as brain centroid...
mean wm in atlas = 108, using box (83,83,103) --> (121, 121,155) to find MRI wm
before smoothing, mri peak at 105
robust fit to distribution - 106 +- 5.4
after smoothing, mri peak at 106, scaling input intensities by 1.019
scaling channel 0 by 1.01887
initial log_p = -4.669
************************************************
First Search limited to translation only.
************************************************
max log p =    -4.572911 @ (-9.091, -9.091, -9.091)
max log p =    -4.502985 @ (4.545, 4.545, -4.545)
max log p =    -4.471366 @ (-2.273, 2.273, 2.273)
max log p =    -4.468996 @ (7.955, -7.955, -3.409)
max log p =    -4.450531 @ (-5.114, 6.250, 2.841)
max log p =    -4.450531 @ (0.000, 0.000, 0.000)
Found translation: (-4.0, -4.0, -11.9): log p = -4.451
****************************************
Nine parameter search.  iteration 0 nscales = 0 ...
****************************************
Result so far: scale 1.000: max_log_p=-4.219, old_max_log_p =-4.451 (thresh=-4.4)
 1.13041   0.18351  -0.10490  -27.21310;
-0.15998   1.17846   0.33757  -50.91752;
 0.13885  -0.27296   1.01871   0.27235;
 0.00000   0.00000   0.00000   1.00000;
****************************************
Nine parameter search.  iteration 1 nscales = 0 ...
****************************************
Result so far: scale 1.000: max_log_p=-4.185, old_max_log_p =-4.219 (thresh=-4.2)
 1.14162   0.02812  -0.14806  -8.20844;
-0.01107   1.19233   0.32099  -69.11711;
 0.12843  -0.25249   0.94231   8.57116;
 0.00000   0.00000   0.00000   1.00000;
****************************************
Nine parameter search.  iteration 2 nscales = 0 ...
****************************************
Result so far: scale 1.000: max_log_p=-4.185, old_max_log_p =-4.185 (thresh=-4.2)
 1.14162   0.02812  -0.14806  -8.20844;
-0.01107   1.19233   0.32099  -69.11711;
 0.12843  -0.25249   0.94231   8.57116;
 0.00000   0.00000   0.00000   1.00000;
reducing scale to 0.2500
****************************************
Nine parameter search.  iteration 3 nscales = 1 ...
****************************************
Result so far: scale 0.250: max_log_p=-4.079, old_max_log_p =-4.185 (thresh=-4.2)
 1.12153   0.09368  -0.06646  -23.69850;
-0.08920   1.13581   0.24903  -43.42171;
 0.05348  -0.17872   0.98708   1.91731;
 0.00000   0.00000   0.00000   1.00000;
****************************************
Nine parameter search.  iteration 4 nscales = 1 ...
****************************************
Result so far: scale 0.250: max_log_p=-4.079, old_max_log_p =-4.079 (thresh=-4.1)
 1.12153   0.09368  -0.06646  -23.69850;
-0.08920   1.13581   0.24903  -43.42171;
 0.05348  -0.17872   0.98708   1.91731;
 0.00000   0.00000   0.00000   1.00000;
reducing scale to 0.0625
****************************************
Nine parameter search.  iteration 5 nscales = 2 ...
****************************************
Result so far: scale 0.062: max_log_p=-4.062, old_max_log_p =-4.079 (thresh=-4.1)
 1.11759   0.09335  -0.06622  -22.70782;
-0.08931   1.13714   0.24932  -43.63869;
 0.05336  -0.17831   0.98477   2.17279;
 0.00000   0.00000   0.00000   1.00000;
****************************************
Nine parameter search.  iteration 6 nscales = 2 ...
****************************************
Result so far: scale 0.062: max_log_p=-4.056, old_max_log_p =-4.062 (thresh=-4.1)
 1.11628   0.09324  -0.06615  -22.53446;
-0.08952   1.13981   0.24990  -44.07420;
 0.05336  -0.17831   0.98477   2.17279;
 0.00000   0.00000   0.00000   1.00000;
****************************************
Nine parameter search.  iteration 7 nscales = 2 ...
****************************************
Result so far: scale 0.062: max_log_p=-4.056, old_max_log_p =-4.056 (thresh=-4.1)
 1.11628   0.09324  -0.06615  -22.53446;
-0.08952   1.13981   0.24990  -44.07420;
 0.05336  -0.17831   0.98477   2.17279;
 0.00000   0.00000   0.00000   1.00000;
min search scale 0.025000 reached
***********************************************
Computing MAP estimate using 3243 samples...
***********************************************
dt = 5.00e-06, momentum=0.80, tol=1.00e-05
l_intensity = 1.0000
Aligning input volume to GCA...
Transform matrix
 1.11628   0.09324  -0.06615  -22.53446;
-0.08952   1.13981   0.24990  -44.07420;
 0.05336  -0.17831   0.98477   2.17279;
 0.00000   0.00000   0.00000   1.00000;
nsamples 3243
Quasinewton: input matrix
 1.11628   0.09324  -0.06615  -22.53446;
-0.08952   1.13981   0.24990  -44.07420;
 0.05336  -0.17831   0.98477   2.17279;
 0.00000   0.00000   0.00000   1.00000;
outof QuasiNewtonEMA: 010: -log(p) =   -0.0  tol 0.000010
Resulting transform:
 1.11628   0.09324  -0.06615  -22.53446;
-0.08952   1.13981   0.24990  -44.07420;
 0.05336  -0.17831   0.98477   2.17279;
 0.00000   0.00000   0.00000   1.00000;

pass 1, spacing 8: log(p) = -4.056 (old=-4.669)
transform before final EM align:
 1.11628   0.09324  -0.06615  -22.53446;
-0.08952   1.13981   0.24990  -44.07420;
 0.05336  -0.17831   0.98477   2.17279;
 0.00000   0.00000   0.00000   1.00000;

**************************************************
 EM alignment process ...
 Computing final MAP estimate using 364799 samples.
**************************************************
dt = 5.00e-06, momentum=0.80, tol=1.00e-07
l_intensity = 1.0000
Aligning input volume to GCA...
Transform matrix
 1.11628   0.09324  -0.06615  -22.53446;
-0.08952   1.13981   0.24990  -44.07420;
 0.05336  -0.17831   0.98477   2.17279;
 0.00000   0.00000   0.00000   1.00000;
nsamples 364799
Quasinewton: input matrix
 1.11628   0.09324  -0.06615  -22.53446;
-0.08952   1.13981   0.24990  -44.07420;
 0.05336  -0.17831   0.98477   2.17279;
 0.00000   0.00000   0.00000   1.00000;
outof QuasiNewtonEMA: 012: -log(p) =    4.4  tol 0.000000
final transform:
 1.11628   0.09324  -0.06615  -22.53446;
-0.08952   1.13981   0.24990  -44.07420;
 0.05336  -0.17831   0.98477   2.17279;
 0.00000   0.00000   0.00000   1.00000;

writing output transformation to transforms/talairach_with_skull.lta...
mri_em_register utimesec    2193.131349
mri_em_register stimesec    7.565501
mri_em_register ru_maxrss   609832
mri_em_register ru_ixrss    0
mri_em_register ru_idrss    0
mri_em_register ru_isrss    0
mri_em_register ru_minflt   1488382
mri_em_register ru_majflt   0
mri_em_register ru_nswap    0
mri_em_register ru_inblock  0
mri_em_register ru_oublock  32
mri_em_register ru_msgsnd   0
mri_em_register ru_msgrcv   0
mri_em_register ru_nsignals 0
mri_em_register ru_nvcsw    24
mri_em_register ru_nivcsw   11996
registration took 36 minutes and 45 seconds.

 mri_watershed -rusage /study2/emowrap/data/freesurfer/subjects/066/touch/rusage.mri_watershed.dat -T1 -brain_atlas /apps/x86_64_sci7/freesurfer-6.0.0/average/RB_all_withskull_2016-05-10.vc700.gca transforms/talairach_with_skull.lta T1.mgz brainmask.auto.mgz


Mode:          T1 normalized volume
Mode:          Use the information of atlas (default parms, --help for details)

*********************************************************
The input file is T1.mgz
The output file is brainmask.auto.mgz
Weighting the input with atlas information before watershed

*************************WATERSHED**************************
Sorting...
      first estimation of the COG coord: x=128 y=124 z=122 r=73
      first estimation of the main basin volume: 1653821 voxels
      Looking for seedpoints
        2 found in the cerebellum
        17 found in the rest of the brain
      global maximum in x=108, y=110, z=90, Imax=255
      CSF=20, WM_intensity=110, WM_VARIANCE=5
      WM_MIN=110, WM_HALF_MIN=110, WM_HALF_MAX=110, WM_MAX=110
      preflooding height equal to 10 percent
done.
Analyze...

      main basin size=624967477 voxels, voxel volume =1.000
                     = 624967477 mmm3 = 624967.488 cm3
done.
PostAnalyze...Basin Prior
 229 basins merged thanks to atlas
      ***** 0 basin(s) merged in 1 iteration(s)
      ***** 0 voxel(s) added to the main basin
done.
Weighting the input with prior template

****************TEMPLATE DEFORMATION****************

      second estimation of the COG coord: x=128,y=127, z=119, r=10164 iterations
^^^^^^^^ couldn't find WM with original limits - expanding ^^^^^^

   GLOBAL      CSF_MIN=0, CSF_intensity=5, CSF_MAX=31 , nb = 45388
  RIGHT_CER    CSF_MIN=0, CSF_intensity=4, CSF_MAX=22 , nb = -1033787908
  LEFT_CER     CSF_MIN=0, CSF_intensity=4, CSF_MAX=18 , nb = -1057571670
 RIGHT_BRAIN   CSF_MIN=0, CSF_intensity=5, CSF_MAX=35 , nb = -1062869071
 LEFT_BRAIN    CSF_MIN=0, CSF_intensity=5, CSF_MAX=31 , nb = 1077885638
    OTHER      CSF_MIN=0, CSF_intensity=10, CSF_MAX=20 , nb = 1075973522

                     CSF_MAX  TRANSITION  GM_MIN  GM
    GLOBAL
  before analyzing :    31,      34,        39,   66
  after  analyzing :    31,      37,        39,   44
   RIGHT_CER
  before analyzing :    22,      35,        56,   82
  after  analyzing :    22,      49,        56,   57
   LEFT_CER
  before analyzing :    18,      27,        49,   80
  after  analyzing :    18,      41,        49,   50
  RIGHT_BRAIN
  before analyzing :    35,      35,        36,   64
  after  analyzing :    26,      35,        36,   42
  LEFT_BRAIN
  before analyzing :    31,      35,        40,   66
  after  analyzing :    31,      38,        40,   45
     OTHER
  before analyzing :    20,      50,        81,   91
  after  analyzing :    20,      70,        81,   75
      mri_strip_skull: done peeling brain
      highly tesselated surface with 10242 vertices
      matching...66 iterations

*********************VALIDATION*********************
curvature mean = -0.013, std = 0.012
curvature mean = 69.184, std = 8.849

No Rigid alignment: -atlas Mode Off (basic atlas / no registration)
      before rotation: sse = 3.12, sigma = 5.64
      after  rotation: sse = 3.12, sigma = 5.64
Localization of inacurate regions: Erosion-Dilation steps
      the sse mean is  3.37, its var is  5.50
      before Erosion-Dilatation  1.22% of inacurate vertices
      after  Erosion-Dilatation  0.00% of inacurate vertices
      Validation of the shape of the surface done.
Scaling of atlas fields onto current surface fields

********FINAL ITERATIVE TEMPLATE DEFORMATION********
Compute Local values csf/gray
Fine Segmentation...44 iterations

      mri_strip_skull: done peeling brain

Brain Size = 1586122 voxels, voxel volume = 1.000 mm3
           = 1586122 mmm3 = 1586.122 cm3


******************************
Saving brainmask.auto.mgz
done
mri_watershed utimesec    39.931792
mri_watershed stimesec    1.096845
mri_watershed ru_maxrss   853276
mri_watershed ru_ixrss    0
mri_watershed ru_idrss    0
mri_watershed ru_isrss    0
mri_watershed ru_minflt   510323
mri_watershed ru_majflt   0
mri_watershed ru_nswap    0
mri_watershed ru_inblock  0
mri_watershed ru_oublock  2688
mri_watershed ru_msgsnd   0
mri_watershed ru_msgrcv   0
mri_watershed ru_nsignals 0
mri_watershed ru_nvcsw    85
mri_watershed ru_nivcsw   267
mri_watershed done

 cp brainmask.auto.mgz brainmask.mgz

#-------------------------------------
#@# EM Registration Wed Jan  8 16:29:48 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/mri

 mri_em_register -rusage /study2/emowrap/data/freesurfer/subjects/066/touch/rusage.mri_em_register.dat -uns 3 -mask brainmask.mgz nu.mgz /apps/x86_64_sci7/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca transforms/talairach.lta

setting unknown_nbr_spacing = 3
using MR volume brainmask.mgz to mask input volume...

== Number of threads available to mri_em_register for OpenMP = 1 ==
reading 1 input volumes...
logging results to talairach.log
reading '/apps/x86_64_sci7/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca'...
average std = 7.3   using min determinant for regularization = 5.3
0 singular and 841 ill-conditioned covariance matrices regularized
reading 'nu.mgz'...
freeing gibbs priors...done.
accounting for voxel sizes in initial transform
bounding unknown intensity as < 6.3 or > 503.7
total sample mean = 78.8 (1011 zeros)
************************************************
spacing=8, using 2830 sample points, tol=1.00e-05...
************************************************
register_mri: find_optimal_transform
find_optimal_transform: nsamples 2830, passno 0, spacing 8
resetting wm mean[0]: 98 --> 107
resetting gm mean[0]: 61 --> 61
input volume #1 is the most T1-like
using real data threshold=24.1
skull bounding box = (62, 67, 40) --> (190, 198, 210)
using (105, 111, 125) as brain centroid...
mean wm in atlas = 107, using box (89,95,104) --> (120, 127,145) to find MRI wm
before smoothing, mri peak at 105
robust fit to distribution - 106 +- 5.0
after smoothing, mri peak at 105, scaling input intensities by 1.019
scaling channel 0 by 1.01905
initial log_p = -4.257
************************************************
First Search limited to translation only.
************************************************
max log p =    -4.144089 @ (-9.091, -9.091, -9.091)
max log p =    -3.999649 @ (4.545, 4.545, -4.545)
max log p =    -3.971040 @ (2.273, -2.273, -2.273)
max log p =    -3.961583 @ (1.136, 1.136, 1.136)
max log p =    -3.954489 @ (-0.568, -0.568, -1.705)
max log p =    -3.954489 @ (0.000, 0.000, 0.000)
Found translation: (-1.7, -6.3, -16.5): log p = -3.954
****************************************
Nine parameter search.  iteration 0 nscales = 0 ...
****************************************
Result so far: scale 1.000: max_log_p=-3.751, old_max_log_p =-3.954 (thresh=-4.0)
 1.06580   0.01566  -0.13983   4.92529;
 0.00000   1.13509   0.16902  -43.81655;
 0.12074  -0.10236   0.91389  -8.63570;
 0.00000   0.00000   0.00000   1.00000;
****************************************
Nine parameter search.  iteration 1 nscales = 0 ...
****************************************
Result so far: scale 1.000: max_log_p=-3.751, old_max_log_p =-3.751 (thresh=-3.7)
 1.06580   0.01566  -0.13983   4.92529;
 0.00000   1.13509   0.16902  -43.81655;
 0.12074  -0.10236   0.91389  -8.63570;
 0.00000   0.00000   0.00000   1.00000;
reducing scale to 0.2500
****************************************
Nine parameter search.  iteration 2 nscales = 1 ...
****************************************
Result so far: scale 0.250: max_log_p=-3.666, old_max_log_p =-3.751 (thresh=-3.7)
 1.08842   0.08465  -0.06977  -15.18235;
-0.06838   1.12810   0.20391  -38.41083;
 0.05403  -0.14278   0.93205   2.79201;
 0.00000   0.00000   0.00000   1.00000;
****************************************
Nine parameter search.  iteration 3 nscales = 1 ...
****************************************
Result so far: scale 0.250: max_log_p=-3.660, old_max_log_p =-3.666 (thresh=-3.7)
 1.10883   0.08624  -0.07108  -17.84333;
-0.06709   1.10695   0.20009  -33.57894;
 0.05403  -0.14278   0.93205   4.66701;
 0.00000   0.00000   0.00000   1.00000;
****************************************
Nine parameter search.  iteration 4 nscales = 1 ...
****************************************
Result so far: scale 0.250: max_log_p=-3.660, old_max_log_p =-3.660 (thresh=-3.7)
 1.10883   0.08624  -0.07108  -17.84333;
-0.06709   1.10695   0.20009  -33.57894;
 0.05403  -0.14278   0.93205   4.66701;
 0.00000   0.00000   0.00000   1.00000;
reducing scale to 0.0625
****************************************
Nine parameter search.  iteration 5 nscales = 2 ...
****************************************
Result so far: scale 0.062: max_log_p=-3.645, old_max_log_p =-3.660 (thresh=-3.7)
 1.10493   0.08594  -0.07083  -17.33544;
-0.06745   1.10678   0.19222  -32.56882;
 0.05354  -0.13390   0.93474   2.83436;
 0.00000   0.00000   0.00000   1.00000;
****************************************
Nine parameter search.  iteration 6 nscales = 2 ...
****************************************
Result so far: scale 0.062: max_log_p=-3.640, old_max_log_p =-3.645 (thresh=-3.6)
 1.10483   0.11430  -0.01831  -28.09365;
-0.10253   1.09980   0.22423  -31.51506;
 0.00209  -0.17518   0.93346   14.73922;
 0.00000   0.00000   0.00000   1.00000;
****************************************
Nine parameter search.  iteration 7 nscales = 2 ...
****************************************
Result so far: scale 0.062: max_log_p=-3.640, old_max_log_p =-3.640 (thresh=-3.6)
 1.10483   0.11430  -0.01831  -28.09365;
-0.10253   1.09980   0.22423  -31.51506;
 0.00209  -0.17518   0.93346   14.73922;
 0.00000   0.00000   0.00000   1.00000;
min search scale 0.025000 reached
***********************************************
Computing MAP estimate using 2830 samples...
***********************************************
dt = 5.00e-06, momentum=0.80, tol=1.00e-05
l_intensity = 1.0000
Aligning input volume to GCA...
Transform matrix
 1.10483   0.11430  -0.01831  -28.09365;
-0.10253   1.09980   0.22423  -31.51506;
 0.00209  -0.17518   0.93346   14.73922;
 0.00000   0.00000   0.00000   1.00000;
nsamples 2830
Quasinewton: input matrix
 1.10483   0.11430  -0.01831  -28.09365;
-0.10253   1.09980   0.22423  -31.51506;
 0.00209  -0.17518   0.93346   14.73922;
 0.00000   0.00000   0.00000   1.00000;
outof QuasiNewtonEMA: 010: -log(p) =   -0.0  tol 0.000010
Resulting transform:
 1.10483   0.11430  -0.01831  -28.09365;
-0.10253   1.09980   0.22423  -31.51506;
 0.00209  -0.17518   0.93346   14.73922;
 0.00000   0.00000   0.00000   1.00000;

pass 1, spacing 8: log(p) = -3.640 (old=-4.257)
transform before final EM align:
 1.10483   0.11430  -0.01831  -28.09365;
-0.10253   1.09980   0.22423  -31.51506;
 0.00209  -0.17518   0.93346   14.73922;
 0.00000   0.00000   0.00000   1.00000;

**************************************************
 EM alignment process ...
 Computing final MAP estimate using 315557 samples.
**************************************************
dt = 5.00e-06, momentum=0.80, tol=1.00e-07
l_intensity = 1.0000
Aligning input volume to GCA...
Transform matrix
 1.10483   0.11430  -0.01831  -28.09365;
-0.10253   1.09980   0.22423  -31.51506;
 0.00209  -0.17518   0.93346   14.73922;
 0.00000   0.00000   0.00000   1.00000;
nsamples 315557
Quasinewton: input matrix
 1.10483   0.11430  -0.01831  -28.09365;
-0.10253   1.09980   0.22423  -31.51506;
 0.00209  -0.17518   0.93346   14.73922;
 0.00000   0.00000   0.00000   1.00000;
outof QuasiNewtonEMA: 012: -log(p) =    4.1  tol 0.000000
final transform:
 1.10483   0.11430  -0.01831  -28.09365;
-0.10253   1.09980   0.22423  -31.51506;
 0.00209  -0.17518   0.93346   14.73922;
 0.00000   0.00000   0.00000   1.00000;

writing output transformation to transforms/talairach.lta...
mri_em_register utimesec    2086.203833
mri_em_register stimesec    10.390490
mri_em_register ru_maxrss   599156
mri_em_register ru_ixrss    0
mri_em_register ru_idrss    0
mri_em_register ru_isrss    0
mri_em_register ru_minflt   2062011
mri_em_register ru_majflt   0
mri_em_register ru_nswap    0
mri_em_register ru_inblock  0
mri_em_register ru_oublock  32
mri_em_register ru_msgsnd   0
mri_em_register ru_msgrcv   0
mri_em_register ru_nsignals 0
mri_em_register ru_nvcsw    34
mri_em_register ru_nivcsw   17881
registration took 34 minutes and 59 seconds.
#--------------------------------------
#@# CA Normalize Wed Jan  8 17:04:47 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/mri

 mri_ca_normalize -c ctrl_pts.mgz -mask brainmask.mgz nu.mgz /apps/x86_64_sci7/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca transforms/talairach.lta norm.mgz

writing control point volume to ctrl_pts.mgz
using MR volume brainmask.mgz to mask input volume...
reading 1 input volume
reading atlas from '/apps/x86_64_sci7/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca'...
reading transform from 'transforms/talairach.lta'...
reading input volume from nu.mgz...
resetting wm mean[0]: 98 --> 107
resetting gm mean[0]: 61 --> 61
input volume #1 is the most T1-like
using real data threshold=24.1
skull bounding box = (62, 67, 40) --> (190, 199, 210)
using (105, 111, 125) as brain centroid...
mean wm in atlas = 107, using box (89,95,104) --> (120, 127,145) to find MRI wm
before smoothing, mri peak at 105
robust fit to distribution - 106 +- 5.0
after smoothing, mri peak at 105, scaling input intensities by 1.019
scaling channel 0 by 1.01905
using 246344 sample points...
INFO: compute sample coordinates transform
 1.10483   0.11430  -0.01831  -28.09365;
-0.10253   1.09980   0.22423  -31.51506;
 0.00209  -0.17518   0.93346   14.73922;
 0.00000   0.00000   0.00000   1.00000;
INFO: transform used
finding control points in Left_Cerebral_White_Matter....
found 39915 control points for structure...
bounding box (123, 66, 39) --> (190, 170, 214)
Left_Cerebral_White_Matter: limiting intensities to 96.0 --> 132.0
0 of 307 (0.0%) samples deleted
finding control points in Right_Cerebral_White_Matter....
found 39557 control points for structure...
bounding box (69, 65, 38) --> (133, 164, 214)
Right_Cerebral_White_Matter: limiting intensities to 95.0 --> 132.0
0 of 392 (0.0%) samples deleted
finding control points in Left_Cerebellum_White_Matter....
found 3059 control points for structure...
bounding box (125, 147, 68) --> (168, 189, 125)
Left_Cerebellum_White_Matter: limiting intensities to 103.0 --> 132.0
0 of 7 (0.0%) samples deleted
finding control points in Right_Cerebellum_White_Matter....
found 2705 control points for structure...
bounding box (83, 147, 65) --> (126, 182, 125)
Right_Cerebellum_White_Matter: limiting intensities to 108.0 --> 132.0
0 of 8 (0.0%) samples deleted
finding control points in Brain_Stem....
found 3518 control points for structure...
bounding box (110, 134, 105) --> (143, 198, 136)
Brain_Stem: limiting intensities to 104.0 --> 132.0
7 of 17 (41.2%) samples deleted
using 731 total control points for intensity normalization...
bias field = 0.953 +- 0.060
6 of 724 control points discarded
finding control points in Left_Cerebral_White_Matter....
found 39915 control points for structure...
bounding box (123, 66, 39) --> (190, 170, 214)
Left_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0
0 of 552 (0.0%) samples deleted
finding control points in Right_Cerebral_White_Matter....
found 39557 control points for structure...
bounding box (69, 65, 38) --> (133, 164, 214)
Right_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0
0 of 669 (0.0%) samples deleted
finding control points in Left_Cerebellum_White_Matter....
found 3059 control points for structure...
bounding box (125, 147, 68) --> (168, 189, 125)
Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
1 of 59 (1.7%) samples deleted
finding control points in Right_Cerebellum_White_Matter....
found 2705 control points for structure...
bounding box (83, 147, 65) --> (126, 182, 125)
Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
9 of 83 (10.8%) samples deleted
finding control points in Brain_Stem....
found 3518 control points for structure...
bounding box (110, 134, 105) --> (143, 198, 136)
Brain_Stem: limiting intensities to 88.0 --> 132.0
23 of 86 (26.7%) samples deleted
using 1449 total control points for intensity normalization...
bias field = 1.031 +- 0.074
1 of 1381 control points discarded
finding control points in Left_Cerebral_White_Matter....
found 39915 control points for structure...
bounding box (123, 66, 39) --> (190, 170, 214)
Left_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0
0 of 556 (0.0%) samples deleted
finding control points in Right_Cerebral_White_Matter....
found 39557 control points for structure...
bounding box (69, 65, 38) --> (133, 164, 214)
Right_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0
0 of 726 (0.0%) samples deleted
finding control points in Left_Cerebellum_White_Matter....
found 3059 control points for structure...
bounding box (125, 147, 68) --> (168, 189, 125)
Left_Cerebellum_White_Matter: limiting intensities to 91.0 --> 132.0
48 of 109 (44.0%) samples deleted
finding control points in Right_Cerebellum_White_Matter....
found 2705 control points for structure...
bounding box (83, 147, 65) --> (126, 182, 125)
Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
39 of 78 (50.0%) samples deleted
finding control points in Brain_Stem....
found 3518 control points for structure...
bounding box (110, 134, 105) --> (143, 198, 136)
Brain_Stem: limiting intensities to 88.0 --> 132.0
122 of 209 (58.4%) samples deleted
using 1678 total control points for intensity normalization...
bias field = 1.028 +- 0.065
2 of 1442 control points discarded
writing normalized volume to norm.mgz...
writing control points to ctrl_pts.mgz
freeing GCA...done.
normalization took 2 minutes and 35 seconds.
#--------------------------------------
#@# CA Reg Wed Jan  8 17:07:22 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/mri

 mri_ca_register -rusage /study2/emowrap/data/freesurfer/subjects/066/touch/rusage.mri_ca_register.dat -nobigventricles -T transforms/talairach.lta -align-after -mask brainmask.mgz norm.mgz /apps/x86_64_sci7/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca transforms/talairach.m3z

not handling expanded ventricles...
using previously computed transform transforms/talairach.lta
renormalizing sequences with structure alignment, equivalent to:
	-renormalize
	-regularize_mean 0.500
	-regularize 0.500
using MR volume brainmask.mgz to mask input volume...

== Number of threads available to mri_ca_register for OpenMP = 1 ==
reading 1 input volumes...
logging results to talairach.log
reading input volume 'norm.mgz'...
reading GCA '/apps/x86_64_sci7/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca'...
label assignment complete, 0 changed (0.00%)
det(m_affine) = 1.19 (predicted orig area = 6.7)
label assignment complete, 0 changed (0.00%)
freeing gibbs priors...done.
average std[0] = 5.0
**************** pass 1 of 1 ************************
enabling zero nodes
setting smoothness coefficient to 0.039
blurring input image with Gaussian with sigma=2.000...
0000: dt=0.000, rms=0.960, neg=0, invalid=762
0001: dt=258.858804, rms=0.895 (6.791%), neg=0, invalid=762
0002: dt=315.492240, rms=0.866 (3.265%), neg=0, invalid=762
0003: dt=167.069767, rms=0.856 (1.127%), neg=0, invalid=762
0004: dt=517.888000, rms=0.844 (1.385%), neg=0, invalid=762
0005: dt=149.894737, rms=0.838 (0.645%), neg=0, invalid=762
0006: dt=517.888000, rms=0.832 (0.813%), neg=0, invalid=762
0007: dt=133.530864, rms=0.828 (0.393%), neg=0, invalid=762
0008: dt=1775.616000, rms=0.817 (1.365%), neg=0, invalid=762
0009: dt=114.162162, rms=0.810 (0.875%), neg=0, invalid=762
0010: dt=1775.616000, rms=0.805 (0.579%), neg=0, invalid=762
0011: dt=146.181818, rms=0.801 (0.536%), neg=0, invalid=762
0012: dt=129.472000, rms=0.800 (0.061%), neg=0, invalid=762
0013: dt=129.472000, rms=0.800 (0.074%), neg=0, invalid=762
0014: dt=129.472000, rms=0.799 (0.105%), neg=0, invalid=762
0015: dt=129.472000, rms=0.798 (0.134%), neg=0, invalid=762
0016: dt=129.472000, rms=0.797 (0.163%), neg=0, invalid=762
0017: dt=129.472000, rms=0.795 (0.200%), neg=0, invalid=762
0018: dt=129.472000, rms=0.793 (0.220%), neg=0, invalid=762
0019: dt=129.472000, rms=0.792 (0.223%), neg=0, invalid=762
0020: dt=129.472000, rms=0.790 (0.231%), neg=0, invalid=762
0021: dt=129.472000, rms=0.788 (0.220%), neg=0, invalid=762
0022: dt=129.472000, rms=0.786 (0.214%), neg=0, invalid=762
0023: dt=129.472000, rms=0.785 (0.207%), neg=0, invalid=762
0024: dt=129.472000, rms=0.783 (0.204%), neg=0, invalid=762
0025: dt=129.472000, rms=0.782 (0.196%), neg=0, invalid=762
0026: dt=129.472000, rms=0.780 (0.195%), neg=0, invalid=762
0027: dt=129.472000, rms=0.778 (0.195%), neg=0, invalid=762
0028: dt=129.472000, rms=0.777 (0.189%), neg=0, invalid=762
0029: dt=129.472000, rms=0.776 (0.173%), neg=0, invalid=762
0030: dt=129.472000, rms=0.774 (0.157%), neg=0, invalid=762
0031: dt=129.472000, rms=0.773 (0.145%), neg=0, invalid=762
0032: dt=129.472000, rms=0.772 (0.143%), neg=0, invalid=762
0033: dt=129.472000, rms=0.771 (0.134%), neg=0, invalid=762
0034: dt=129.472000, rms=0.770 (0.119%), neg=0, invalid=762
0035: dt=129.472000, rms=0.769 (0.109%), neg=0, invalid=762
0036: dt=517.888000, rms=0.769 (0.010%), neg=0, invalid=762
0037: dt=517.888000, rms=0.769 (0.035%), neg=0, invalid=762
0038: dt=517.888000, rms=0.769 (-0.315%), neg=0, invalid=762
blurring input image with Gaussian with sigma=0.500...
0000: dt=0.000, rms=0.770, neg=0, invalid=762
0039: dt=129.472000, rms=0.769 (0.121%), neg=0, invalid=762
0040: dt=517.888000, rms=0.768 (0.118%), neg=0, invalid=762
0041: dt=517.888000, rms=0.768 (-0.112%), neg=0, invalid=762
setting smoothness coefficient to 0.154
blurring input image with Gaussian with sigma=2.000...
0000: dt=0.000, rms=0.774, neg=0, invalid=762
0042: dt=151.676301, rms=0.766 (1.036%), neg=0, invalid=762
0043: dt=237.843972, rms=0.751 (1.957%), neg=0, invalid=762
0044: dt=69.019608, rms=0.744 (0.888%), neg=0, invalid=762
0045: dt=331.776000, rms=0.737 (0.987%), neg=0, invalid=762
0046: dt=62.208000, rms=0.730 (0.914%), neg=0, invalid=762
0047: dt=497.664000, rms=0.722 (1.160%), neg=0, invalid=762
0048: dt=65.315068, rms=0.718 (0.543%), neg=0, invalid=762
0049: dt=145.152000, rms=0.716 (0.226%), neg=0, invalid=762
0050: dt=145.152000, rms=0.715 (0.141%), neg=0, invalid=762
0051: dt=145.152000, rms=0.711 (0.549%), neg=0, invalid=762
0052: dt=145.152000, rms=0.707 (0.559%), neg=0, invalid=762
0053: dt=145.152000, rms=0.707 (0.116%), neg=0, invalid=762
0054: dt=145.152000, rms=0.707 (-0.076%), neg=0, invalid=762
0055: dt=36.288000, rms=0.706 (0.109%), neg=0, invalid=762
0056: dt=145.152000, rms=0.705 (0.111%), neg=0, invalid=762
0057: dt=103.680000, rms=0.704 (0.094%), neg=0, invalid=762
blurring input image with Gaussian with sigma=0.500...
0000: dt=0.000, rms=0.705, neg=0, invalid=762
0058: dt=71.745223, rms=0.703 (0.222%), neg=0, invalid=762
0059: dt=36.288000, rms=0.703 (0.015%), neg=0, invalid=762
0060: dt=36.288000, rms=0.703 (0.004%), neg=0, invalid=762
0061: dt=36.288000, rms=0.703 (-0.004%), neg=0, invalid=762
setting smoothness coefficient to 0.588
blurring input image with Gaussian with sigma=2.000...
0000: dt=0.000, rms=0.725, neg=0, invalid=762
0062: dt=2.800000, rms=0.724 (0.089%), neg=0, invalid=762
0063: dt=2.000000, rms=0.724 (0.004%), neg=0, invalid=762
0064: dt=2.000000, rms=0.724 (-0.001%), neg=0, invalid=762
blurring input image with Gaussian with sigma=0.500...
0000: dt=0.000, rms=0.725, neg=0, invalid=762
0065: dt=0.000000, rms=0.724 (0.073%), neg=0, invalid=762
0066: dt=0.000000, rms=0.724 (0.000%), neg=0, invalid=762
setting smoothness coefficient to 2.000
blurring input image with Gaussian with sigma=2.000...
0000: dt=0.000, rms=0.787, neg=0, invalid=762
0067: dt=5.008130, rms=0.774 (1.549%), neg=0, invalid=762
0068: dt=0.252000, rms=0.774 (0.004%), neg=0, invalid=762
0069: dt=0.252000, rms=0.774 (-0.000%), neg=0, invalid=762
blurring input image with Gaussian with sigma=0.500...
0000: dt=0.000, rms=0.775, neg=0, invalid=762
0070: dt=0.000000, rms=0.774 (0.062%), neg=0, invalid=762
0071: dt=0.000000, rms=0.774 (0.000%), neg=0, invalid=762
setting smoothness coefficient to 5.000
blurring input image with Gaussian with sigma=2.000...
0000: dt=0.000, rms=0.860, neg=0, invalid=762
0072: dt=1.536000, rms=0.854 (0.728%), neg=0, invalid=762
0073: dt=1.792000, rms=0.850 (0.476%), neg=0, invalid=762
0074: dt=0.448000, rms=0.849 (0.050%), neg=0, invalid=762
0075: dt=0.448000, rms=0.849 (0.023%), neg=0, invalid=762
0076: dt=0.448000, rms=0.849 (-0.005%), neg=0, invalid=762
blurring input image with Gaussian with sigma=0.500...
0000: dt=0.000, rms=0.850, neg=0, invalid=762
0077: dt=1.280000, rms=0.848 (0.164%), neg=0, invalid=762
0078: dt=0.112000, rms=0.848 (0.000%), neg=0, invalid=762
0079: dt=0.112000, rms=0.848 (0.001%), neg=0, invalid=762
0080: dt=0.112000, rms=0.848 (-0.001%), neg=0, invalid=762
resetting metric properties...
setting smoothness coefficient to 10.000
blurring input image with Gaussian with sigma=2.000...
0000: dt=0.000, rms=0.770, neg=0, invalid=762
0081: dt=1.096437, rms=0.737 (4.286%), neg=0, invalid=762
0082: dt=0.096000, rms=0.736 (0.208%), neg=0, invalid=762
0083: dt=0.096000, rms=0.736 (-0.088%), neg=0, invalid=762
blurring input image with Gaussian with sigma=0.500...
0000: dt=0.000, rms=0.736, neg=0, invalid=762
0084: dt=0.028000, rms=0.736 (0.097%), neg=0, invalid=762
0085: dt=0.016000, rms=0.736 (0.003%), neg=0, invalid=762
0086: dt=0.016000, rms=0.736 (-0.002%), neg=0, invalid=762
renormalizing by structure alignment....
renormalizing input #0
gca peak = 0.10027 (20)
mri peak = 0.14837 (16)
Left_Lateral_Ventricle (4): linear fit = 0.75 x + 0.0 (2031 voxels, overlap=0.478)
Left_Lateral_Ventricle (4): linear fit = 0.75 x + 0.0 (2031 voxels, peak = 15), gca=14.9
gca peak = 0.15565 (16)
mri peak = 0.12453 (16)
Right_Lateral_Ventricle (43): linear fit = 0.81 x + 0.0 (1327 voxels, overlap=0.714)
Right_Lateral_Ventricle (43): linear fit = 0.81 x + 0.0 (1327 voxels, peak = 13), gca=13.0
gca peak = 0.26829 (96)
mri peak = 0.07237 (101)
Right_Pallidum (52): linear fit = 1.03 x + 0.0 (626 voxels, overlap=0.871)
Right_Pallidum (52): linear fit = 1.03 x + 0.0 (626 voxels, peak = 99), gca=99.4
gca peak = 0.20183 (93)
mri peak = 0.09431 (97)
Left_Pallidum (13): linear fit = 1.03 x + 0.0 (646 voxels, overlap=0.850)
Left_Pallidum (13): linear fit = 1.03 x + 0.0 (646 voxels, peak = 96), gca=96.3
gca peak = 0.21683 (55)
mri peak = 0.09288 (61)
Right_Hippocampus (53): linear fit = 1.04 x + 0.0 (673 voxels, overlap=0.788)
Right_Hippocampus (53): linear fit = 1.04 x + 0.0 (673 voxels, peak = 57), gca=57.5
gca peak = 0.30730 (58)
mri peak = 0.09517 (59)
Left_Hippocampus (17): linear fit = 1.04 x + 0.0 (589 voxels, overlap=0.786)
Left_Hippocampus (17): linear fit = 1.04 x + 0.0 (589 voxels, peak = 61), gca=60.6
gca peak = 0.11430 (101)
mri peak = 0.09611 (101)
Right_Cerebral_White_Matter (41): linear fit = 1.01 x + 0.0 (52094 voxels, overlap=0.858)
Right_Cerebral_White_Matter (41): linear fit = 1.01 x + 0.0 (52094 voxels, peak = 103), gca=102.5
gca peak = 0.12076 (102)
mri peak = 0.07565 (102)
Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (51040 voxels, overlap=0.943)
Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (51040 voxels, peak = 103), gca=102.5
gca peak = 0.14995 (59)
mri peak = 0.03328 (65)
Left_Cerebral_Cortex (3): linear fit = 1.12 x + 0.0 (13750 voxels, overlap=0.597)
Left_Cerebral_Cortex (3): linear fit = 1.12 x + 0.0 (13750 voxels, peak = 66), gca=66.4
gca peak = 0.15082 (58)
mri peak = 0.03614 (69)
Right_Cerebral_Cortex (42): linear fit = 1.16 x + 0.0 (13213 voxels, overlap=0.050)
Right_Cerebral_Cortex (42): linear fit = 1.16 x + 0.0 (13213 voxels, peak = 68), gca=67.6
gca peak = 0.14161 (67)
mri peak = 0.10746 (70)
Right_Caudate (50): linear fit = 0.99 x + 0.0 (827 voxels, overlap=0.862)
Right_Caudate (50): linear fit = 0.99 x + 0.0 (827 voxels, peak = 66), gca=66.0
gca peak = 0.15243 (71)
mri peak = 0.11155 (100)
Left_Caudate (11): linear fit = 1.30 x + 0.0 (800 voxels, overlap=0.013)
Left_Caudate (11): linear fit = 1.30 x + 0.0 (800 voxels, peak = 93), gca=92.7
gca peak = 0.13336 (57)
mri peak = 0.03742 (64)
Left_Cerebellum_Cortex (8): linear fit = 1.16 x + 0.0 (15178 voxels, overlap=0.442)
Left_Cerebellum_Cortex (8): linear fit = 1.16 x + 0.0 (15178 voxels, peak = 66), gca=66.4
gca peak = 0.13252 (56)
mri peak = 0.04891 (68)
Right_Cerebellum_Cortex (47): linear fit = 1.24 x + 0.0 (16253 voxels, overlap=0.036)
Right_Cerebellum_Cortex (47): linear fit = 1.24 x + 0.0 (16253 voxels, peak = 69), gca=69.2
gca peak = 0.18181 (84)
mri peak = 0.05772 (87)
Left_Cerebellum_White_Matter (7): linear fit = 1.02 x + 0.0 (8185 voxels, overlap=0.834)
Left_Cerebellum_White_Matter (7): linear fit = 1.02 x + 0.0 (8185 voxels, peak = 86), gca=86.1
gca peak = 0.20573 (83)
mri peak = 0.08154 (83)
Right_Cerebellum_White_Matter (46): linear fit = 1.01 x + 0.0 (8217 voxels, overlap=0.972)
Right_Cerebellum_White_Matter (46): linear fit = 1.01 x + 0.0 (8217 voxels, peak = 84), gca=84.2
gca peak = 0.21969 (57)
mri peak = 0.09126 (63)
Left_Amygdala (18): linear fit = 1.04 x + 0.0 (262 voxels, overlap=0.995)
Left_Amygdala (18): linear fit = 1.04 x + 0.0 (262 voxels, peak = 60), gca=59.6
gca peak = 0.39313 (56)
mri peak = 0.10922 (59)
Right_Amygdala (54): linear fit = 1.04 x + 0.0 (464 voxels, overlap=0.943)
Right_Amygdala (54): linear fit = 1.04 x + 0.0 (464 voxels, peak = 59), gca=58.5
gca peak = 0.14181 (85)
mri peak = 0.08883 (82)
Left_Thalamus_Proper (10): linear fit = 0.95 x + 0.0 (4309 voxels, overlap=0.867)
Left_Thalamus_Proper (10): linear fit = 0.95 x + 0.0 (4309 voxels, peak = 81), gca=81.2
gca peak = 0.11978 (83)
mri peak = 0.09896 (82)
Right_Thalamus_Proper (49): linear fit = 1.00 x + 0.0 (4220 voxels, overlap=0.922)
Right_Thalamus_Proper (49): linear fit = 1.00 x + 0.0 (4220 voxels, peak = 83), gca=82.6
gca peak = 0.13399 (79)
mri peak = 0.06355 (83)
Left_Putamen (12): linear fit = 1.04 x + 0.0 (1855 voxels, overlap=0.835)
Left_Putamen (12): linear fit = 1.04 x + 0.0 (1855 voxels, peak = 83), gca=82.6
gca peak = 0.14159 (79)
mri peak = 0.05787 (87)
Right_Putamen (51): linear fit = 1.12 x + 0.0 (1984 voxels, overlap=0.764)
Right_Putamen (51): linear fit = 1.12 x + 0.0 (1984 voxels, peak = 88), gca=88.1
gca peak = 0.10025 (80)
mri peak = 0.08739 (88)
Brain_Stem (16): linear fit = 1.10 x + 0.0 (12449 voxels, overlap=0.402)
Brain_Stem (16): linear fit = 1.10 x + 0.0 (12449 voxels, peak = 88), gca=87.6
gca peak = 0.13281 (86)
mri peak = 0.09082 (93)
Right_VentralDC (60): linear fit = 1.08 x + 0.0 (1158 voxels, overlap=0.628)
Right_VentralDC (60): linear fit = 1.08 x + 0.0 (1158 voxels, peak = 92), gca=92.5
gca peak = 0.12801 (89)
mri peak = 0.08436 (90)
Left_VentralDC (28): linear fit = 1.07 x + 0.0 (1037 voxels, overlap=0.751)
Left_VentralDC (28): linear fit = 1.07 x + 0.0 (1037 voxels, peak = 95), gca=94.8
gca peak = 0.20494 (23)
mri peak = 0.09733 (13)
gca peak = 0.15061 (21)
mri peak = 0.14994 (17)
Fourth_Ventricle (15): linear fit = 0.68 x + 0.0 (238 voxels, overlap=0.461)
Fourth_Ventricle (15): linear fit = 0.68 x + 0.0 (238 voxels, peak = 14), gca=14.2
gca peak Unknown = 0.94835 ( 0)
gca peak Left_Inf_Lat_Vent = 0.18056 (32)
gca peak Left_Thalamus = 0.64095 (94)
gca peak Third_Ventricle = 0.20494 (23)
gca peak CSF = 0.20999 (34)
gca peak Left_Accumbens_area = 0.39030 (62)
gca peak Left_undetermined = 0.95280 (25)
gca peak Left_vessel = 0.67734 (53)
gca peak Left_choroid_plexus = 0.09433 (44)
gca peak Right_Inf_Lat_Vent = 0.23544 (26)
gca peak Right_Accumbens_area = 0.30312 (64)
gca peak Right_vessel = 0.46315 (51)
gca peak Right_choroid_plexus = 0.14086 (44)
gca peak Fifth_Ventricle = 0.51669 (36)
gca peak WM_hypointensities = 0.09722 (76)
gca peak non_WM_hypointensities = 0.11899 (47)
gca peak Optic_Chiasm = 0.39033 (72)
label assignment complete, 0 changed (0.00%)
not using caudate to estimate GM means
estimating mean gm scale to be 1.08 x + 0.0
estimating mean wm scale to be 1.01 x + 0.0
estimating mean csf scale to be 0.74 x + 0.0
saving intensity scales to talairach.label_intensities.txt
**************** pass 1 of 1 ************************
enabling zero nodes
setting smoothness coefficient to 0.008
blurring input image with Gaussian with sigma=2.000...
0000: dt=0.000, rms=0.732, neg=0, invalid=762
0087: dt=73.984000, rms=0.728 (0.651%), neg=0, invalid=762
0088: dt=110.976000, rms=0.726 (0.161%), neg=0, invalid=762
0089: dt=295.936000, rms=0.724 (0.384%), neg=0, invalid=762
0090: dt=517.888000, rms=0.720 (0.536%), neg=0, invalid=762
0091: dt=110.976000, rms=0.719 (0.126%), neg=0, invalid=762
0092: dt=443.904000, rms=0.718 (0.147%), neg=0, invalid=762
0093: dt=110.976000, rms=0.717 (0.173%), neg=0, invalid=762
0094: dt=295.936000, rms=0.716 (0.130%), neg=0, invalid=762
0095: dt=92.480000, rms=0.715 (0.117%), neg=0, invalid=762
0096: dt=887.808000, rms=0.713 (0.254%), neg=0, invalid=762
0097: dt=92.480000, rms=0.712 (0.155%), neg=0, invalid=762
0098: dt=517.888000, rms=0.711 (0.137%), neg=0, invalid=762
0099: dt=92.480000, rms=0.710 (0.083%), neg=0, invalid=762
0100: dt=517.888000, rms=0.710 (0.097%), neg=0, invalid=762
0101: dt=110.976000, rms=0.709 (0.074%), neg=0, invalid=762
0102: dt=295.936000, rms=0.709 (0.060%), neg=0, invalid=762
0103: dt=92.480000, rms=0.708 (0.057%), neg=0, invalid=762
0104: dt=1183.744000, rms=0.707 (0.152%), neg=0, invalid=762
0105: dt=92.480000, rms=0.706 (0.149%), neg=0, invalid=762
0106: dt=443.904000, rms=0.706 (0.055%), neg=0, invalid=762
0107: dt=92.480000, rms=0.705 (0.052%), neg=0, invalid=762
0108: dt=517.888000, rms=0.705 (0.066%), neg=0, invalid=762
0109: dt=92.480000, rms=0.705 (0.036%), neg=0, invalid=762
0110: dt=92.480000, rms=0.705 (0.015%), neg=0, invalid=762
0111: dt=92.480000, rms=0.704 (0.030%), neg=0, invalid=762
0112: dt=92.480000, rms=0.704 (0.040%), neg=0, invalid=762
0113: dt=92.480000, rms=0.704 (0.046%), neg=0, invalid=762
0114: dt=92.480000, rms=0.703 (0.053%), neg=0, invalid=762
0115: dt=92.480000, rms=0.703 (0.059%), neg=0, invalid=762
0116: dt=92.480000, rms=0.703 (0.062%), neg=0, invalid=762
0117: dt=92.480000, rms=0.702 (0.061%), neg=0, invalid=762
0118: dt=92.480000, rms=0.702 (0.065%), neg=0, invalid=762
0119: dt=92.480000, rms=0.701 (0.068%), neg=0, invalid=762
0120: dt=92.480000, rms=0.701 (0.070%), neg=0, invalid=762
0121: dt=92.480000, rms=0.700 (0.066%), neg=0, invalid=762
0122: dt=92.480000, rms=0.700 (0.060%), neg=0, invalid=762
0123: dt=92.480000, rms=0.699 (0.060%), neg=0, invalid=762
0124: dt=92.480000, rms=0.699 (0.064%), neg=0, invalid=762
0125: dt=92.480000, rms=0.699 (0.063%), neg=0, invalid=762
0126: dt=92.480000, rms=0.698 (0.062%), neg=0, invalid=762
0127: dt=92.480000, rms=0.698 (0.058%), neg=0, invalid=762
0128: dt=92.480000, rms=0.697 (0.055%), neg=0, invalid=762
0129: dt=92.480000, rms=0.697 (0.052%), neg=0, invalid=762
0130: dt=92.480000, rms=0.697 (0.051%), neg=0, invalid=762
0131: dt=92.480000, rms=0.696 (0.048%), neg=0, invalid=762
0132: dt=92.480000, rms=0.696 (0.047%), neg=0, invalid=762
0133: dt=92.480000, rms=0.696 (0.045%), neg=0, invalid=762
0134: dt=92.480000, rms=0.695 (0.047%), neg=0, invalid=762
0135: dt=92.480000, rms=0.695 (0.047%), neg=0, invalid=762
0136: dt=92.480000, rms=0.695 (0.045%), neg=0, invalid=762
0137: dt=92.480000, rms=0.694 (0.043%), neg=0, invalid=762
0138: dt=92.480000, rms=0.694 (0.041%), neg=0, invalid=762
0139: dt=92.480000, rms=0.694 (0.039%), neg=0, invalid=762
0140: dt=92.480000, rms=0.693 (0.040%), neg=0, invalid=762
0141: dt=92.480000, rms=0.693 (0.040%), neg=0, invalid=762
0142: dt=92.480000, rms=0.693 (0.039%), neg=0, invalid=762
0143: dt=92.480000, rms=0.693 (0.035%), neg=0, invalid=762
0144: dt=92.480000, rms=0.692 (0.034%), neg=0, invalid=762
0145: dt=92.480000, rms=0.692 (0.033%), neg=0, invalid=762
0146: dt=92.480000, rms=0.692 (0.034%), neg=0, invalid=762
0147: dt=92.480000, rms=0.692 (0.036%), neg=0, invalid=762
0148: dt=92.480000, rms=0.691 (0.036%), neg=0, invalid=762
0149: dt=92.480000, rms=0.691 (0.034%), neg=0, invalid=762
0150: dt=92.480000, rms=0.691 (0.031%), neg=0, invalid=762
0151: dt=92.480000, rms=0.691 (0.029%), neg=0, invalid=762
0152: dt=92.480000, rms=0.691 (0.026%), neg=0, invalid=762
0153: dt=92.480000, rms=0.690 (0.026%), neg=0, invalid=762
0154: dt=92.480000, rms=0.690 (0.028%), neg=0, invalid=762
0155: dt=92.480000, rms=0.690 (0.028%), neg=0, invalid=762
0156: dt=92.480000, rms=0.690 (0.027%), neg=0, invalid=762
0157: dt=92.480000, rms=0.690 (0.027%), neg=0, invalid=762
0158: dt=92.480000, rms=0.690 (0.026%), neg=0, invalid=762
0159: dt=92.480000, rms=0.689 (0.025%), neg=0, invalid=762
0160: dt=92.480000, rms=0.689 (0.023%), neg=0, invalid=762
0161: dt=92.480000, rms=0.689 (0.023%), neg=0, invalid=762
0162: dt=2071.552000, rms=0.689 (0.049%), neg=0, invalid=762
0163: dt=55.488000, rms=0.689 (0.012%), neg=0, invalid=762
0164: dt=55.488000, rms=0.689 (-0.001%), neg=0, invalid=762
blurring input image with Gaussian with sigma=0.500...
0000: dt=0.000, rms=0.689, neg=0, invalid=762
0165: dt=369.920000, rms=0.686 (0.402%), neg=0, invalid=762
0166: dt=129.472000, rms=0.686 (0.114%), neg=0, invalid=762
0167: dt=443.904000, rms=0.685 (0.061%), neg=0, invalid=762
0168: dt=221.952000, rms=0.685 (0.068%), neg=0, invalid=762
0169: dt=129.472000, rms=0.685 (0.019%), neg=0, invalid=762
0170: dt=129.472000, rms=0.684 (0.016%), neg=0, invalid=762
0171: dt=129.472000, rms=0.684 (0.021%), neg=0, invalid=762
0172: dt=129.472000, rms=0.684 (0.029%), neg=0, invalid=762
0173: dt=129.472000, rms=0.684 (0.030%), neg=0, invalid=762
0174: dt=129.472000, rms=0.684 (0.038%), neg=0, invalid=762
0175: dt=129.472000, rms=0.683 (0.031%), neg=0, invalid=762
0176: dt=129.472000, rms=0.683 (0.024%), neg=0, invalid=762
0177: dt=129.472000, rms=0.683 (0.022%), neg=0, invalid=762
0178: dt=517.888000, rms=0.683 (0.019%), neg=0, invalid=762
0179: dt=517.888000, rms=0.683 (-0.143%), neg=0, invalid=762
setting smoothness coefficient to 0.031
blurring input image with Gaussian with sigma=2.000...
0000: dt=0.000, rms=0.684, neg=0, invalid=762
0180: dt=36.288000, rms=0.682 (0.329%), neg=0, invalid=762
0181: dt=36.288000, rms=0.680 (0.235%), neg=0, invalid=762
0182: dt=9.072000, rms=0.680 (0.056%), neg=0, invalid=762
0183: dt=7.776000, rms=0.680 (0.049%), neg=0, invalid=762
0184: dt=0.972000, rms=0.680 (0.006%), neg=0, invalid=762
0185: dt=0.121500, rms=0.680 (0.001%), neg=0, invalid=762
0186: dt=0.060750, rms=0.680 (0.000%), neg=0, invalid=762
0187: dt=0.025312, rms=0.680 (0.000%), neg=0, invalid=762
blurring input image with Gaussian with sigma=0.500...
0000: dt=0.000, rms=0.680, neg=0, invalid=762
0188: dt=0.008859, rms=0.680 (0.076%), neg=0, invalid=762
0189: dt=0.007594, rms=0.680 (0.000%), neg=0, invalid=762
0190: dt=0.000119, rms=0.680 (0.000%), neg=0, invalid=762
0191: dt=0.000004, rms=0.680 (0.000%), neg=0, invalid=762
0192: dt=0.000002, rms=0.680 (0.000%), neg=0, invalid=762
0193: dt=0.000000, rms=0.680 (0.000%), neg=0, invalid=762
setting smoothness coefficient to 0.118
blurring input image with Gaussian with sigma=2.000...
0000: dt=0.000, rms=0.683, neg=0, invalid=762
0194: dt=0.000000, rms=0.682 (0.075%), neg=0, invalid=762
0195: dt=0.000000, rms=0.682 (0.000%), neg=0, invalid=762
0196: dt=0.000000, rms=0.682 (0.000%), neg=0, invalid=762
0197: dt=0.000000, rms=0.682 (0.000%), neg=0, invalid=762
blurring input image with Gaussian with sigma=0.500...
0000: dt=0.000, rms=0.683, neg=0, invalid=762
0198: dt=0.000000, rms=0.682 (0.075%), neg=0, invalid=762
0199: dt=0.000000, rms=0.682 (0.000%), neg=0, invalid=762
0200: dt=0.000008, rms=0.682 (0.000%), neg=0, invalid=762
0201: dt=0.000004, rms=0.682 (0.000%), neg=0, invalid=762
0202: dt=0.000002, rms=0.682 (0.000%), neg=0, invalid=762
setting smoothness coefficient to 0.400
blurring input image with Gaussian with sigma=2.000...
0000: dt=0.000, rms=0.692, neg=0, invalid=762
0203: dt=4.032000, rms=0.670 (3.175%), neg=0, invalid=762
0204: dt=4.032000, rms=0.653 (2.463%), neg=0, invalid=762
0205: dt=3.456000, rms=0.642 (1.668%), neg=0, invalid=762
0206: dt=0.252000, rms=0.642 (0.103%), neg=0, invalid=762
0207: dt=0.216000, rms=0.641 (0.085%), neg=0, invalid=762
0208: dt=0.015750, rms=0.641 (0.006%), neg=0, invalid=762
0209: dt=0.001969, rms=0.641 (0.001%), neg=0, invalid=762
0210: dt=0.000984, rms=0.641 (0.000%), neg=0, invalid=762
0211: dt=0.000492, rms=0.641 (0.000%), neg=0, invalid=762
0212: dt=0.000246, rms=0.641 (0.000%), neg=0, invalid=762
blurring input image with Gaussian with sigma=0.500...
0000: dt=0.000, rms=0.642, neg=0, invalid=762
0213: dt=0.000000, rms=0.641 (0.080%), neg=0, invalid=762
0214: dt=0.000000, rms=0.641 (0.000%), neg=0, invalid=762
0215: dt=0.000037, rms=0.641 (0.000%), neg=0, invalid=762
0216: dt=0.000018, rms=0.641 (0.000%), neg=0, invalid=762
0217: dt=0.000001, rms=0.641 (0.000%), neg=0, invalid=762
setting smoothness coefficient to 1.000
blurring input image with Gaussian with sigma=2.000...
0000: dt=0.000, rms=0.663, neg=0, invalid=762
0218: dt=1.792000, rms=0.657 (0.905%), neg=0, invalid=762
0219: dt=1.792000, rms=0.653 (0.568%), neg=0, invalid=762
0220: dt=1.792000, rms=0.650 (0.408%), neg=0, invalid=762
0221: dt=1.792000, rms=0.648 (0.317%), neg=0, invalid=762
0222: dt=1.792000, rms=0.647 (0.248%), neg=0, invalid=762
0223: dt=1.792000, rms=0.645 (0.207%), neg=0, invalid=762
0224: dt=1.792000, rms=0.644 (0.169%), neg=0, invalid=762
0225: dt=1.888889, rms=0.643 (0.157%), neg=0, invalid=762
0226: dt=1.792000, rms=0.642 (0.123%), neg=0, invalid=762
0227: dt=1.792000, rms=0.642 (0.115%), neg=0, invalid=762
0228: dt=1.792000, rms=0.641 (0.094%), neg=0, invalid=762
0229: dt=1.792000, rms=0.641 (0.090%), neg=0, invalid=762
0230: dt=1.792000, rms=0.640 (0.080%), neg=0, invalid=762
0231: dt=1.792000, rms=0.640 (0.075%), neg=0, invalid=762
0232: dt=1.792000, rms=0.639 (0.064%), neg=0, invalid=762
0233: dt=1.792000, rms=0.639 (0.059%), neg=0, invalid=762
0234: dt=1.792000, rms=0.638 (0.055%), neg=0, invalid=762
0235: dt=1.792000, rms=0.638 (0.052%), neg=0, invalid=762
0236: dt=1.792000, rms=0.638 (0.049%), neg=0, invalid=762
0237: dt=1.792000, rms=0.638 (0.040%), neg=0, invalid=762
0238: dt=1.792000, rms=0.637 (0.074%), neg=0, invalid=762
0239: dt=1.792000, rms=0.636 (0.098%), neg=0, invalid=762
0240: dt=1.792000, rms=0.636 (0.099%), neg=0, invalid=762
0241: dt=1.792000, rms=0.635 (0.087%), neg=0, invalid=762
0242: dt=1.792000, rms=0.635 (0.070%), neg=0, invalid=762
0243: dt=1.792000, rms=0.635 (0.033%), neg=0, invalid=762
0244: dt=1.792000, rms=0.635 (-0.018%), neg=0, invalid=762
0245: dt=0.000000, rms=0.635 (0.000%), neg=0, invalid=762
blurring input image with Gaussian with sigma=0.500...
0000: dt=0.000, rms=0.635, neg=0, invalid=762
0246: dt=2.312500, rms=0.633 (0.344%), neg=0, invalid=762
0247: dt=1.792000, rms=0.632 (0.132%), neg=0, invalid=762
0248: dt=1.792000, rms=0.631 (0.107%), neg=0, invalid=762
0249: dt=1.792000, rms=0.631 (0.086%), neg=0, invalid=762
0250: dt=1.792000, rms=0.630 (0.078%), neg=0, invalid=762
0251: dt=1.792000, rms=0.630 (0.067%), neg=0, invalid=762
0252: dt=1.792000, rms=0.630 (0.064%), neg=0, invalid=762
0253: dt=1.792000, rms=0.629 (0.051%), neg=0, invalid=762
0254: dt=1.792000, rms=0.629 (0.054%), neg=0, invalid=762
0255: dt=1.792000, rms=0.629 (0.040%), neg=0, invalid=762
0256: dt=1.792000, rms=0.628 (0.046%), neg=0, invalid=762
0257: dt=1.792000, rms=0.628 (0.076%), neg=0, invalid=762
0258: dt=1.792000, rms=0.627 (0.093%), neg=0, invalid=762
0259: dt=1.792000, rms=0.627 (0.111%), neg=0, invalid=762
0260: dt=1.792000, rms=0.626 (0.110%), neg=0, invalid=762
0261: dt=1.792000, rms=0.625 (0.101%), neg=0, invalid=762
0262: dt=1.792000, rms=0.625 (0.084%), neg=0, invalid=762
0263: dt=1.792000, rms=0.624 (0.067%), neg=0, invalid=762
0264: dt=1.792000, rms=0.624 (0.054%), neg=0, invalid=762
0265: dt=1.792000, rms=0.624 (0.041%), neg=0, invalid=762
0266: dt=1.792000, rms=0.624 (0.033%), neg=0, invalid=762
0267: dt=1.792000, rms=0.623 (0.027%), neg=0, invalid=762
0268: dt=1.792000, rms=0.623 (0.030%), neg=0, invalid=762
0269: dt=1.792000, rms=0.623 (0.004%), neg=0, invalid=762
0270: dt=1.792000, rms=0.623 (-0.002%), neg=0, invalid=762
0271: dt=1.792000, rms=0.623 (0.004%), neg=0, invalid=762
0272: dt=1.792000, rms=0.623 (0.007%), neg=0, invalid=762
0273: dt=-0.000698, rms=0.623 (-0.002%), neg=0, invalid=762
resetting metric properties...
setting smoothness coefficient to 2.000
blurring input image with Gaussian with sigma=2.000...
0000: dt=0.000, rms=0.614, neg=0, invalid=762
0274: dt=0.320000, rms=0.595 (3.025%), neg=0, invalid=762
0275: dt=0.320000, rms=0.586 (1.582%), neg=0, invalid=762
0276: dt=0.112000, rms=0.584 (0.312%), neg=0, invalid=762
0277: dt=0.112000, rms=0.583 (0.272%), neg=0, invalid=762
0278: dt=0.112000, rms=0.581 (0.242%), neg=0, invalid=762
0279: dt=0.112000, rms=0.580 (0.211%), neg=0, invalid=762
0280: dt=0.229167, rms=0.578 (0.384%), neg=0, invalid=762
0281: dt=0.125000, rms=0.577 (0.165%), neg=0, invalid=762
0282: dt=0.112000, rms=0.576 (0.132%), neg=0, invalid=762
0283: dt=0.112000, rms=0.575 (0.124%), neg=0, invalid=762
0284: dt=0.112000, rms=0.575 (0.107%), neg=0, invalid=762
0285: dt=0.112000, rms=0.574 (0.104%), neg=0, invalid=762
0286: dt=0.112000, rms=0.574 (0.096%), neg=0, invalid=762
0287: dt=0.112000, rms=0.573 (0.087%), neg=0, invalid=762
0288: dt=0.112000, rms=0.573 (0.079%), neg=0, invalid=762
0289: dt=0.112000, rms=0.572 (0.079%), neg=0, invalid=762
0290: dt=0.112000, rms=0.572 (0.071%), neg=0, invalid=762
0291: dt=0.112000, rms=0.571 (0.066%), neg=0, invalid=762
0292: dt=0.112000, rms=0.571 (0.065%), neg=0, invalid=762
0293: dt=0.112000, rms=0.571 (0.059%), neg=0, invalid=762
0294: dt=0.112000, rms=0.570 (0.056%), neg=0, invalid=762
0295: dt=0.112000, rms=0.570 (0.053%), neg=0, invalid=762
0296: dt=0.112000, rms=0.570 (0.052%), neg=0, invalid=762
0297: dt=0.112000, rms=0.569 (0.049%), neg=0, invalid=762
0298: dt=0.112000, rms=0.569 (0.043%), neg=0, invalid=762
0299: dt=0.112000, rms=0.569 (0.084%), neg=0, invalid=762
0300: dt=0.112000, rms=0.568 (0.115%), neg=0, invalid=762
0301: dt=0.112000, rms=0.567 (0.134%), neg=0, invalid=762
0302: dt=0.112000, rms=0.567 (0.146%), neg=0, invalid=762
0303: dt=0.112000, rms=0.566 (0.149%), neg=0, invalid=762
0304: dt=0.112000, rms=0.565 (0.147%), neg=0, invalid=762
0305: dt=0.112000, rms=0.564 (0.135%), neg=0, invalid=762
0306: dt=0.112000, rms=0.563 (0.121%), neg=0, invalid=762
0307: dt=0.112000, rms=0.563 (0.106%), neg=0, invalid=762
0308: dt=0.112000, rms=0.562 (0.090%), neg=0, invalid=762
0309: dt=0.112000, rms=0.562 (0.074%), neg=0, invalid=762
0310: dt=0.112000, rms=0.562 (0.060%), neg=0, invalid=762
0311: dt=0.112000, rms=0.561 (0.043%), neg=0, invalid=762
0312: dt=0.112000, rms=0.561 (0.032%), neg=0, invalid=762
0313: dt=0.112000, rms=0.561 (0.023%), neg=0, invalid=762
0314: dt=0.112000, rms=0.561 (0.017%), neg=0, invalid=762
0315: dt=0.000000, rms=0.561 (-0.003%), neg=0, invalid=762
blurring input image with Gaussian with sigma=0.500...
0000: dt=0.000, rms=0.562, neg=0, invalid=762
0316: dt=0.112000, rms=0.559 (0.464%), neg=0, invalid=762
0317: dt=0.112000, rms=0.557 (0.283%), neg=0, invalid=762
0318: dt=0.112000, rms=0.556 (0.220%), neg=0, invalid=762
0319: dt=0.132812, rms=0.555 (0.194%), neg=0, invalid=762
0320: dt=0.112000, rms=0.554 (0.121%), neg=0, invalid=762
0321: dt=0.112000, rms=0.554 (0.088%), neg=0, invalid=762
0322: dt=0.112000, rms=0.553 (0.069%), neg=0, invalid=762
0323: dt=0.112000, rms=0.553 (0.047%), neg=0, invalid=762
0324: dt=0.112000, rms=0.553 (0.038%), neg=0, invalid=762
0325: dt=0.112000, rms=0.553 (0.052%), neg=0, invalid=762
0326: dt=0.112000, rms=0.552 (0.050%), neg=0, invalid=762
0327: dt=0.112000, rms=0.552 (0.025%), neg=0, invalid=762
0328: dt=0.112000, rms=0.552 (-0.019%), neg=0, invalid=762
0329: dt=0.000000, rms=0.552 (0.000%), neg=0, invalid=762
label assignment complete, 0 changed (0.00%)
********************* ALLOWING NEGATIVE NODES IN DEFORMATION********************************
**************** pass 1 of 1 ************************
enabling zero nodes
setting smoothness coefficient to 0.008
blurring input image with Gaussian with sigma=2.000...
0000: dt=0.000, rms=0.549, neg=0, invalid=762
0330: dt=0.000000, rms=0.549 (0.117%), neg=0, invalid=762
0331: dt=0.000000, rms=0.549 (0.000%), neg=0, invalid=762
blurring input image with Gaussian with sigma=0.500...
0000: dt=0.000, rms=0.549, neg=0, invalid=762
0332: dt=32.368000, rms=0.549 (0.124%), neg=0, invalid=762
0333: dt=32.368000, rms=0.549 (0.004%), neg=0, invalid=762
0334: dt=32.368000, rms=0.549 (0.004%), neg=0, invalid=762
0335: dt=32.368000, rms=0.549 (0.003%), neg=0, invalid=762
0336: dt=32.368000, rms=0.549 (-0.002%), neg=0, invalid=762
setting smoothness coefficient to 0.031
blurring input image with Gaussian with sigma=2.000...
0000: dt=0.000, rms=0.549, neg=0, invalid=762
0337: dt=9.072000, rms=0.549 (0.149%), neg=0, invalid=762
0338: dt=6.480000, rms=0.549 (0.006%), neg=0, invalid=762
0339: dt=6.480000, rms=0.549 (-0.001%), neg=0, invalid=762
blurring input image with Gaussian with sigma=0.500...
0000: dt=0.000, rms=0.549, neg=0, invalid=762
0340: dt=124.416000, rms=0.546 (0.656%), neg=0, invalid=762
0341: dt=31.104000, rms=0.545 (0.125%), neg=0, invalid=762
0342: dt=31.104000, rms=0.545 (0.065%), neg=0, invalid=762
0343: dt=31.104000, rms=0.544 (0.094%), neg=0, invalid=762
0344: dt=31.104000, rms=0.543 (0.121%), neg=0, invalid=762
0345: dt=31.104000, rms=0.543 (0.130%), neg=0, invalid=762
0346: dt=31.104000, rms=0.542 (0.133%), neg=0, invalid=762
0347: dt=31.104000, rms=0.541 (0.117%), neg=0, invalid=762
0348: dt=31.104000, rms=0.541 (0.084%), neg=0, invalid=762
0349: dt=36.288000, rms=0.541 (0.007%), neg=0, invalid=762
0350: dt=36.288000, rms=0.541 (0.022%), neg=0, invalid=762
0351: dt=36.288000, rms=0.541 (0.031%), neg=0, invalid=762
0352: dt=36.288000, rms=0.540 (0.045%), neg=0, invalid=762
0353: dt=36.288000, rms=0.540 (0.056%), neg=0, invalid=762
0354: dt=36.288000, rms=0.540 (0.061%), neg=0, invalid=762
0355: dt=36.288000, rms=0.539 (0.065%), neg=0, invalid=762
0356: dt=36.288000, rms=0.539 (0.061%), neg=0, invalid=762
0357: dt=36.288000, rms=0.539 (0.052%), neg=0, invalid=762
setting smoothness coefficient to 0.118
blurring input image with Gaussian with sigma=2.000...
0000: dt=0.000, rms=0.540, neg=0, invalid=762
iter 0, gcam->neg = 3
after 9 iterations, nbhd size=1, neg = 0
0358: dt=19.200000, rms=0.538 (0.374%), neg=0, invalid=762
iter 0, gcam->neg = 8
after 11 iterations, nbhd size=1, neg = 0
0359: dt=25.600000, rms=0.537 (0.071%), neg=0, invalid=762
iter 0, gcam->neg = 38
after 14 iterations, nbhd size=1, neg = 0
0360: dt=25.600000, rms=0.537 (0.144%), neg=0, invalid=762
iter 0, gcam->neg = 89
after 19 iterations, nbhd size=1, neg = 0
0361: dt=25.600000, rms=0.536 (0.053%), neg=0, invalid=762
iter 0, gcam->neg = 165
after 19 iterations, nbhd size=1, neg = 0
0362: dt=25.600000, rms=0.535 (0.159%), neg=0, invalid=762
iter 0, gcam->neg = 376
after 23 iterations, nbhd size=1, neg = 0
0363: dt=25.600000, rms=0.535 (0.139%), neg=0, invalid=762
iter 0, gcam->neg = 452
after 21 iterations, nbhd size=1, neg = 0
0364: dt=25.600000, rms=0.534 (0.131%), neg=0, invalid=762
iter 0, gcam->neg = 559
after 22 iterations, nbhd size=1, neg = 0
0365: dt=25.600000, rms=0.533 (0.203%), neg=0, invalid=762
iter 0, gcam->neg = 715
after 29 iterations, nbhd size=1, neg = 0
0366: dt=25.600000, rms=0.532 (0.174%), neg=0, invalid=762
iter 0, gcam->neg = 748
after 25 iterations, nbhd size=1, neg = 0
0367: dt=25.600000, rms=0.530 (0.286%), neg=0, invalid=762
iter 0, gcam->neg = 922
after 28 iterations, nbhd size=1, neg = 0
0368: dt=25.600000, rms=0.530 (0.102%), neg=0, invalid=762
iter 0, gcam->neg = 963
after 25 iterations, nbhd size=1, neg = 0
0369: dt=25.600000, rms=0.529 (0.157%), neg=0, invalid=762
iter 0, gcam->neg = 1014
after 29 iterations, nbhd size=1, neg = 0
0370: dt=25.600000, rms=0.529 (0.010%), neg=0, invalid=762
iter 0, gcam->neg = 1067
after 26 iterations, nbhd size=1, neg = 0
0371: dt=25.600000, rms=0.529 (-0.080%), neg=0, invalid=762
iter 0, gcam->neg = 301
after 20 iterations, nbhd size=1, neg = 0
0372: dt=44.800000, rms=0.527 (0.348%), neg=0, invalid=762
iter 0, gcam->neg = 175
after 22 iterations, nbhd size=1, neg = 0
0373: dt=44.800000, rms=0.527 (0.101%), neg=0, invalid=762
iter 0, gcam->neg = 278
after 20 iterations, nbhd size=1, neg = 0
0374: dt=44.800000, rms=0.526 (0.144%), neg=0, invalid=762
iter 0, gcam->neg = 506
after 23 iterations, nbhd size=1, neg = 0
0375: dt=44.800000, rms=0.525 (0.086%), neg=0, invalid=762
iter 0, gcam->neg = 651
after 31 iterations, nbhd size=1, neg = 0
0376: dt=44.800000, rms=0.524 (0.207%), neg=0, invalid=762
iter 0, gcam->neg = 837
after 23 iterations, nbhd size=1, neg = 0
0377: dt=44.800000, rms=0.524 (-0.012%), neg=0, invalid=762
iter 0, gcam->neg = 83
after 21 iterations, nbhd size=1, neg = 0
0378: dt=44.800000, rms=0.524 (0.092%), neg=0, invalid=762
iter 0, gcam->neg = 133
after 24 iterations, nbhd size=1, neg = 0
0379: dt=32.000000, rms=0.524 (-0.043%), neg=0, invalid=762
blurring input image with Gaussian with sigma=0.500...
0000: dt=0.000, rms=0.525, neg=0, invalid=762
iter 0, gcam->neg = 85
after 20 iterations, nbhd size=1, neg = 0
0380: dt=53.095541, rms=0.519 (1.143%), neg=0, invalid=762
iter 0, gcam->neg = 64
after 15 iterations, nbhd size=1, neg = 0
0381: dt=32.000000, rms=0.517 (0.287%), neg=0, invalid=762
iter 0, gcam->neg = 68
after 20 iterations, nbhd size=1, neg = 0
0382: dt=38.400000, rms=0.516 (0.263%), neg=0, invalid=762
iter 0, gcam->neg = 64
after 19 iterations, nbhd size=1, neg = 0
0383: dt=32.000000, rms=0.515 (0.218%), neg=0, invalid=762
iter 0, gcam->neg = 19
after 17 iterations, nbhd size=1, neg = 0
0384: dt=32.000000, rms=0.514 (0.089%), neg=0, invalid=762
iter 0, gcam->neg = 57
after 18 iterations, nbhd size=1, neg = 0
0385: dt=32.000000, rms=0.513 (0.204%), neg=0, invalid=762
iter 0, gcam->neg = 177
after 19 iterations, nbhd size=1, neg = 0
0386: dt=32.000000, rms=0.512 (0.135%), neg=0, invalid=762
iter 0, gcam->neg = 390
after 22 iterations, nbhd size=1, neg = 0
0387: dt=32.000000, rms=0.511 (0.195%), neg=0, invalid=762
iter 0, gcam->neg = 504
after 24 iterations, nbhd size=1, neg = 0
0388: dt=32.000000, rms=0.511 (-0.051%), neg=0, invalid=762
iter 0, gcam->neg = 58
after 26 iterations, nbhd size=1, neg = 0
0389: dt=32.000000, rms=0.511 (-0.121%), neg=0, invalid=762
setting smoothness coefficient to 0.400
blurring input image with Gaussian with sigma=2.000...
0000: dt=0.000, rms=0.523, neg=0, invalid=762
iter 0, gcam->neg = 26
after 18 iterations, nbhd size=1, neg = 0
0390: dt=4.465116, rms=0.522 (0.202%), neg=0, invalid=762
iter 0, gcam->neg = 8
after 13 iterations, nbhd size=1, neg = 0
0391: dt=2.880000, rms=0.522 (-0.003%), neg=0, invalid=762
blurring input image with Gaussian with sigma=0.500...
0000: dt=0.000, rms=0.522, neg=0, invalid=762
iter 0, gcam->neg = 21
after 14 iterations, nbhd size=1, neg = 0
0392: dt=5.913043, rms=0.521 (0.212%), neg=0, invalid=762
iter 0, gcam->neg = 44
after 20 iterations, nbhd size=1, neg = 0
0393: dt=6.571429, rms=0.521 (-0.081%), neg=0, invalid=762
setting smoothness coefficient to 1.000
blurring input image with Gaussian with sigma=2.000...
0000: dt=0.000, rms=0.537, neg=0, invalid=762
0394: dt=0.448000, rms=0.536 (0.154%), neg=0, invalid=762
0395: dt=0.448000, rms=0.536 (0.028%), neg=0, invalid=762
0396: dt=0.448000, rms=0.536 (0.002%), neg=0, invalid=762
iter 0, gcam->neg = 2
after 1 iterations, nbhd size=0, neg = 0
0397: dt=0.448000, rms=0.536 (-0.065%), neg=0, invalid=762
blurring input image with Gaussian with sigma=0.500...
0000: dt=0.000, rms=0.537, neg=0, invalid=762
iter 0, gcam->neg = 5
after 10 iterations, nbhd size=1, neg = 0
0398: dt=1.792000, rms=0.535 (0.311%), neg=0, invalid=762
iter 0, gcam->neg = 64
after 22 iterations, nbhd size=1, neg = 0
0399: dt=1.792000, rms=0.535 (0.001%), neg=0, invalid=762
iter 0, gcam->neg = 26
after 7 iterations, nbhd size=0, neg = 0
0400: dt=1.792000, rms=0.534 (0.149%), neg=0, invalid=762
iter 0, gcam->neg = 70
after 8 iterations, nbhd size=0, neg = 0
0401: dt=1.792000, rms=0.534 (0.050%), neg=0, invalid=762
iter 0, gcam->neg = 130
after 22 iterations, nbhd size=1, neg = 0
0402: dt=1.792000, rms=0.534 (-0.325%), neg=0, invalid=762
iter 0, gcam->neg = 326
after 19 iterations, nbhd size=1, neg = 0
0403: dt=4.096000, rms=0.533 (0.183%), neg=0, invalid=762
iter 0, gcam->neg = 197
after 21 iterations, nbhd size=1, neg = 0
0404: dt=4.096000, rms=0.533 (0.049%), neg=0, invalid=762
resetting metric properties...
setting smoothness coefficient to 2.000
blurring input image with Gaussian with sigma=2.000...
0000: dt=0.000, rms=0.525, neg=0, invalid=762
iter 0, gcam->neg = 2314
after 20 iterations, nbhd size=1, neg = 0
0405: dt=2.242325, rms=0.480 (8.566%), neg=0, invalid=762
0406: dt=0.064000, rms=0.480 (0.049%), neg=0, invalid=762
0407: dt=0.064000, rms=0.480 (-0.030%), neg=0, invalid=762
blurring input image with Gaussian with sigma=0.500...
0000: dt=0.000, rms=0.481, neg=0, invalid=762
0408: dt=0.096000, rms=0.480 (0.219%), neg=0, invalid=762
0409: dt=0.000023, rms=0.480 (0.001%), neg=0, invalid=762
0410: dt=0.000023, rms=0.480 (-0.000%), neg=0, invalid=762
label assignment complete, 0 changed (0.00%)
label assignment complete, 0 changed (0.00%)
***************** morphing with label term set to 0 *******************************
**************** pass 1 of 1 ************************
enabling zero nodes
setting smoothness coefficient to 0.008
blurring input image with Gaussian with sigma=2.000...
0000: dt=0.000, rms=0.462, neg=0, invalid=762
0411: dt=5.780000, rms=0.462 (0.001%), neg=0, invalid=762
0412: dt=0.361250, rms=0.462 (0.000%), neg=0, invalid=762
0413: dt=0.361250, rms=0.462 (-0.000%), neg=0, invalid=762
blurring input image with Gaussian with sigma=0.500...
0000: dt=0.000, rms=0.462, neg=0, invalid=762
0414: dt=32.368000, rms=0.462 (0.024%), neg=0, invalid=762
0415: dt=32.368000, rms=0.462 (0.006%), neg=0, invalid=762
0416: dt=32.368000, rms=0.462 (0.004%), neg=0, invalid=762
0417: dt=32.368000, rms=0.462 (0.002%), neg=0, invalid=762
0418: dt=32.368000, rms=0.462 (-0.001%), neg=0, invalid=762
setting smoothness coefficient to 0.031
blurring input image with Gaussian with sigma=2.000...
0000: dt=0.000, rms=0.462, neg=0, invalid=762
0419: dt=16.444444, rms=0.462 (0.054%), neg=0, invalid=762
0420: dt=9.072000, rms=0.462 (0.007%), neg=0, invalid=762
0421: dt=9.072000, rms=0.462 (-0.001%), neg=0, invalid=762
blurring input image with Gaussian with sigma=0.500...
0000: dt=0.000, rms=0.462, neg=0, invalid=762
0422: dt=79.758794, rms=0.461 (0.282%), neg=0, invalid=762
0423: dt=36.288000, rms=0.460 (0.128%), neg=0, invalid=762
iter 0, gcam->neg = 1
after 2 iterations, nbhd size=0, neg = 0
0424: dt=36.288000, rms=0.460 (0.072%), neg=0, invalid=762
iter 0, gcam->neg = 8
after 13 iterations, nbhd size=1, neg = 0
0425: dt=36.288000, rms=0.460 (0.052%), neg=0, invalid=762
iter 0, gcam->neg = 8
after 14 iterations, nbhd size=1, neg = 0
0426: dt=36.288000, rms=0.460 (-0.007%), neg=0, invalid=762
setting smoothness coefficient to 0.118
blurring input image with Gaussian with sigma=2.000...
0000: dt=0.000, rms=0.460, neg=0, invalid=762
iter 0, gcam->neg = 90
after 22 iterations, nbhd size=1, neg = 0
0427: dt=21.029940, rms=0.460 (0.130%), neg=0, invalid=762
iter 0, gcam->neg = 111
after 21 iterations, nbhd size=1, neg = 0
0428: dt=25.600000, rms=0.460 (-0.029%), neg=0, invalid=762
blurring input image with Gaussian with sigma=0.500...
0000: dt=0.000, rms=0.460, neg=0, invalid=762
iter 0, gcam->neg = 188
after 22 iterations, nbhd size=1, neg = 0
0429: dt=53.371025, rms=0.456 (0.792%), neg=0, invalid=762
iter 0, gcam->neg = 141
after 19 iterations, nbhd size=1, neg = 0
0430: dt=31.548235, rms=0.454 (0.387%), neg=0, invalid=762
iter 0, gcam->neg = 58
after 21 iterations, nbhd size=1, neg = 0
0431: dt=32.000000, rms=0.454 (0.096%), neg=0, invalid=762
iter 0, gcam->neg = 71
after 15 iterations, nbhd size=1, neg = 0
0432: dt=32.000000, rms=0.453 (0.137%), neg=0, invalid=762
iter 0, gcam->neg = 256
after 25 iterations, nbhd size=1, neg = 0
0433: dt=32.000000, rms=0.453 (0.126%), neg=0, invalid=762
iter 0, gcam->neg = 413
after 23 iterations, nbhd size=1, neg = 0
0434: dt=32.000000, rms=0.451 (0.309%), neg=0, invalid=762
iter 0, gcam->neg = 584
after 24 iterations, nbhd size=1, neg = 0
0435: dt=32.000000, rms=0.451 (0.030%), neg=0, invalid=762
iter 0, gcam->neg = 660
after 29 iterations, nbhd size=1, neg = 0
0436: dt=32.000000, rms=0.451 (0.022%), neg=0, invalid=762
iter 0, gcam->neg = 33
after 19 iterations, nbhd size=1, neg = 0
0437: dt=25.600000, rms=0.451 (0.099%), neg=0, invalid=762
iter 0, gcam->neg = 74
after 21 iterations, nbhd size=1, neg = 0
0438: dt=32.000000, rms=0.450 (0.129%), neg=0, invalid=762
iter 0, gcam->neg = 56
after 21 iterations, nbhd size=1, neg = 0
0439: dt=25.600000, rms=0.450 (0.100%), neg=0, invalid=762
iter 0, gcam->neg = 48
after 17 iterations, nbhd size=1, neg = 0
0440: dt=25.600000, rms=0.449 (0.134%), neg=0, invalid=762
iter 0, gcam->neg = 199
after 25 iterations, nbhd size=1, neg = 0
0441: dt=25.600000, rms=0.449 (-0.253%), neg=0, invalid=762
iter 0, gcam->neg = 92
after 26 iterations, nbhd size=1, neg = 0
0442: dt=38.400000, rms=0.449 (-0.059%), neg=0, invalid=762
setting smoothness coefficient to 0.400
blurring input image with Gaussian with sigma=2.000...
0000: dt=0.000, rms=0.455, neg=0, invalid=762
iter 0, gcam->neg = 78
after 28 iterations, nbhd size=1, neg = 0
0443: dt=7.166667, rms=0.455 (-0.035%), neg=0, invalid=762
blurring input image with Gaussian with sigma=0.500...
0000: dt=0.000, rms=0.455, neg=0, invalid=762
iter 0, gcam->neg = 121
after 31 iterations, nbhd size=2, neg = 0
0444: dt=9.685333, rms=0.454 (0.032%), neg=0, invalid=762
iter 0, gcam->neg = 245
after 30 iterations, nbhd size=1, neg = 0
0445: dt=13.824000, rms=0.454 (0.034%), neg=0, invalid=762
iter 0, gcam->neg = 231
after 21 iterations, nbhd size=1, neg = 0
0446: dt=13.316129, rms=0.453 (0.200%), neg=0, invalid=762
iter 0, gcam->neg = 307
after 26 iterations, nbhd size=1, neg = 0
0447: dt=15.497758, rms=0.453 (0.121%), neg=0, invalid=762
iter 0, gcam->neg = 307
after 27 iterations, nbhd size=1, neg = 0
0448: dt=15.497758, rms=0.453 (-0.079%), neg=0, invalid=762
setting smoothness coefficient to 1.000
blurring input image with Gaussian with sigma=2.000...
0000: dt=0.000, rms=0.461, neg=0, invalid=762
0449: dt=0.000060, rms=0.461 (0.000%), neg=0, invalid=762
0450: dt=0.000000, rms=0.461 (0.000%), neg=0, invalid=762
blurring input image with Gaussian with sigma=0.500...
0000: dt=0.000, rms=0.461, neg=0, invalid=762
0451: dt=0.000000, rms=0.461 (0.000%), neg=0, invalid=762
resetting metric properties...
setting smoothness coefficient to 2.000
blurring input image with Gaussian with sigma=2.000...
0000: dt=0.000, rms=0.447, neg=0, invalid=762
iter 0, gcam->neg = 1160
after 19 iterations, nbhd size=1, neg = 0
0452: dt=1.295632, rms=0.436 (2.459%), neg=0, invalid=762
0453: dt=0.000013, rms=0.436 (0.000%), neg=0, invalid=762
0454: dt=0.000013, rms=0.436 (-0.000%), neg=0, invalid=762
blurring input image with Gaussian with sigma=0.500...
0000: dt=0.000, rms=0.436, neg=0, invalid=762
0455: dt=0.112000, rms=0.436 (0.088%), neg=0, invalid=762
0456: dt=0.112000, rms=0.436 (0.043%), neg=0, invalid=762
0457: dt=0.112000, rms=0.436 (0.041%), neg=0, invalid=762
0458: dt=0.112000, rms=0.436 (0.010%), neg=0, invalid=762
0459: dt=0.112000, rms=0.436 (-0.048%), neg=0, invalid=762
writing output transformation to transforms/talairach.m3z...
GCAMwrite
mri_ca_register took 3 hours, 53 minutes and 8 seconds.
mri_ca_register utimesec    13641.136179
mri_ca_register stimesec    344.621461
mri_ca_register ru_maxrss   1328044
mri_ca_register ru_ixrss    0
mri_ca_register ru_idrss    0
mri_ca_register ru_isrss    0
mri_ca_register ru_minflt   247670607
mri_ca_register ru_majflt   0
mri_ca_register ru_nswap    0
mri_ca_register ru_inblock  0
mri_ca_register ru_oublock  63456
mri_ca_register ru_msgsnd   0
mri_ca_register ru_msgrcv   0
mri_ca_register ru_nsignals 0
mri_ca_register ru_nvcsw    213
mri_ca_register ru_nivcsw   108585
FSRUNTIME@ mri_ca_register  3.8855 hours 1 threads
#--------------------------------------
#@# SubCort Seg Wed Jan  8 21:00:30 CST 2020

 mri_ca_label -relabel_unlikely 9 .3 -prior 0.5 -align norm.mgz transforms/talairach.m3z /apps/x86_64_sci7/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca aseg.auto_noCCseg.mgz

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/mri
mri_ca_label -relabel_unlikely 9 .3 -prior 0.5 -align norm.mgz transforms/talairach.m3z /apps/x86_64_sci7/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca aseg.auto_noCCseg.mgz


== Number of threads available to mri_ca_label for OpenMP = 1 ==
relabeling unlikely voxels with window_size = 9 and prior threshold 0.30
using Gibbs prior factor = 0.500
renormalizing sequences with structure alignment, equivalent to:
	-renormalize
	-renormalize_mean 0.500
	-regularize 0.500
reading 1 input volumes
reading classifier array from /apps/x86_64_sci7/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca
reading input volume from norm.mgz
average std[0] = 7.3
reading transform from transforms/talairach.m3z
setting orig areas to linear transform determinant scaled 6.73
Atlas used for the 3D morph was /apps/x86_64_sci7/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca
average std = 7.3   using min determinant for regularization = 5.3
0 singular and 0 ill-conditioned covariance matrices regularized
labeling volume...
renormalizing by structure alignment....
renormalizing input #0
gca peak = 0.16259 (20)
mri peak = 0.14781 (16)
Left_Lateral_Ventricle (4): linear fit = 0.81 x + 0.0 (2666 voxels, overlap=0.645)
Left_Lateral_Ventricle (4): linear fit = 0.81 x + 0.0 (2666 voxels, peak = 16), gca=16.3
gca peak = 0.17677 (13)
mri peak = 0.14982 (16)
Right_Lateral_Ventricle (43): linear fit = 1.18 x + 0.0 (2586 voxels, overlap=0.602)
Right_Lateral_Ventricle (43): linear fit = 1.18 x + 0.0 (2586 voxels, peak = 15), gca=15.4
gca peak = 0.28129 (95)
mri peak = 0.08588 (100)
Right_Pallidum (52): linear fit = 1.04 x + 0.0 (543 voxels, overlap=1.021)
Right_Pallidum (52): linear fit = 1.04 x + 0.0 (543 voxels, peak = 99), gca=99.3
gca peak = 0.16930 (96)
mri peak = 0.08334 (97)
Left_Pallidum (13): linear fit = 1.04 x + 0.0 (423 voxels, overlap=1.011)
Left_Pallidum (13): linear fit = 1.04 x + 0.0 (423 voxels, peak = 100), gca=100.3
gca peak = 0.24553 (55)
mri peak = 0.08999 (61)
Right_Hippocampus (53): linear fit = 1.04 x + 0.0 (717 voxels, overlap=0.770)
Right_Hippocampus (53): linear fit = 1.04 x + 0.0 (717 voxels, peak = 57), gca=57.5
gca peak = 0.30264 (59)
mri peak = 0.10839 (59)
Left_Hippocampus (17): linear fit = 0.99 x + 0.0 (783 voxels, overlap=1.010)
Left_Hippocampus (17): linear fit = 0.99 x + 0.0 (783 voxels, peak = 58), gca=58.1
gca peak = 0.07580 (103)
mri peak = 0.09980 (101)
Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (38659 voxels, overlap=0.815)
Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (38659 voxels, peak = 102), gca=102.5
gca peak = 0.07714 (104)
mri peak = 0.07704 (102)
Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (30517 voxels, overlap=0.857)
Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (30517 voxels, peak = 103), gca=103.5
gca peak = 0.09712 (58)
mri peak = 0.03696 (65)
Left_Cerebral_Cortex (3): linear fit = 1.13 x + 0.0 (20926 voxels, overlap=0.641)
Left_Cerebral_Cortex (3): linear fit = 1.13 x + 0.0 (20926 voxels, peak = 66), gca=65.8
gca peak = 0.11620 (58)
mri peak = 0.03539 (66)
Right_Cerebral_Cortex (42): linear fit = 1.20 x + 0.0 (14971 voxels, overlap=0.223)
Right_Cerebral_Cortex (42): linear fit = 1.20 x + 0.0 (14971 voxels, peak = 69), gca=69.3
gca peak = 0.30970 (66)
mri peak = 0.12191 (70)
Right_Caudate (50): linear fit = 1.00 x + 0.0 (819 voxels, overlap=1.007)
Right_Caudate (50): linear fit = 1.00 x + 0.0 (819 voxels, peak = 66), gca=66.0
gca peak = 0.15280 (69)
mri peak = 0.10001 (68)
Left_Caudate (11): linear fit = 0.89 x + 0.0 (135 voxels, overlap=0.664)
Left_Caudate (11): linear fit = 0.89 x + 0.0 (135 voxels, peak = 62), gca=61.8
gca peak = 0.13902 (56)
mri peak = 0.04751 (63)
Left_Cerebellum_Cortex (8): linear fit = 1.13 x + 0.0 (15298 voxels, overlap=0.721)
Left_Cerebellum_Cortex (8): linear fit = 1.13 x + 0.0 (15298 voxels, peak = 64), gca=63.6
gca peak = 0.14777 (55)
mri peak = 0.05472 (68)
Right_Cerebellum_Cortex (47): linear fit = 1.25 x + 0.0 (16481 voxels, overlap=0.148)
Right_Cerebellum_Cortex (47): linear fit = 1.25 x + 0.0 (16481 voxels, peak = 68), gca=68.5
gca peak = 0.16765 (84)
mri peak = 0.07301 (87)
Left_Cerebellum_White_Matter (7): linear fit = 1.07 x + 0.0 (6114 voxels, overlap=0.898)
Left_Cerebellum_White_Matter (7): linear fit = 1.07 x + 0.0 (6114 voxels, peak = 89), gca=89.5
gca peak = 0.18739 (84)
mri peak = 0.09559 (85)
Right_Cerebellum_White_Matter (46): linear fit = 1.01 x + 0.0 (4715 voxels, overlap=0.944)
Right_Cerebellum_White_Matter (46): linear fit = 1.01 x + 0.0 (4715 voxels, peak = 85), gca=85.3
gca peak = 0.29869 (57)
mri peak = 0.12455 (59)
Left_Amygdala (18): linear fit = 1.04 x + 0.0 (418 voxels, overlap=0.854)
Left_Amygdala (18): linear fit = 1.04 x + 0.0 (418 voxels, peak = 60), gca=59.6
gca peak = 0.33601 (57)
mri peak = 0.11896 (59)
Right_Amygdala (54): linear fit = 1.04 x + 0.0 (541 voxels, overlap=1.025)
Right_Amygdala (54): linear fit = 1.04 x + 0.0 (541 voxels, peak = 60), gca=59.6
gca peak = 0.11131 (90)
mri peak = 0.11252 (82)
Left_Thalamus_Proper (10): linear fit = 0.95 x + 0.0 (3347 voxels, overlap=0.722)
Left_Thalamus_Proper (10): linear fit = 0.95 x + 0.0 (3347 voxels, peak = 86), gca=85.9
gca peak = 0.11793 (83)
mri peak = 0.11287 (82)
Right_Thalamus_Proper (49): linear fit = 1.00 x + 0.0 (3872 voxels, overlap=0.974)
Right_Thalamus_Proper (49): linear fit = 1.00 x + 0.0 (3872 voxels, peak = 83), gca=82.6
gca peak = 0.08324 (81)
mri peak = 0.06651 (83)
Left_Putamen (12): linear fit = 1.03 x + 0.0 (1503 voxels, overlap=0.927)
Left_Putamen (12): linear fit = 1.03 x + 0.0 (1503 voxels, peak = 84), gca=83.8
gca peak = 0.10360 (77)
mri peak = 0.05774 (87)
Right_Putamen (51): linear fit = 1.11 x + 0.0 (2009 voxels, overlap=0.886)
Right_Putamen (51): linear fit = 1.11 x + 0.0 (2009 voxels, peak = 85), gca=85.1
gca peak = 0.08424 (78)
mri peak = 0.08761 (88)
Brain_Stem (16): linear fit = 1.10 x + 0.0 (13083 voxels, overlap=0.476)
Brain_Stem (16): linear fit = 1.10 x + 0.0 (13083 voxels, peak = 85), gca=85.4
gca peak = 0.12631 (89)
mri peak = 0.08507 (93)
Right_VentralDC (60): linear fit = 1.07 x + 0.0 (1315 voxels, overlap=0.666)
Right_VentralDC (60): linear fit = 1.07 x + 0.0 (1315 voxels, peak = 95), gca=94.8
gca peak = 0.14500 (87)
mri peak = 0.08917 (90)
Left_VentralDC (28): linear fit = 1.04 x + 0.0 (1235 voxels, overlap=0.878)
Left_VentralDC (28): linear fit = 1.04 x + 0.0 (1235 voxels, peak = 91), gca=90.9
gca peak = 0.14975 (24)
mri peak = 0.11111 (13)
gca peak = 0.19357 (14)
mri peak = 0.15592 (17)
Fourth_Ventricle (15): linear fit = 1.03 x + 0.0 (303 voxels, overlap=0.706)
Fourth_Ventricle (15): linear fit = 1.03 x + 0.0 (303 voxels, peak = 14), gca=14.5
gca peak Unknown = 0.94835 ( 0)
gca peak Left_Inf_Lat_Vent = 0.16825 (27)
gca peak Left_Thalamus = 1.00000 (94)
gca peak Third_Ventricle = 0.14975 (24)
gca peak CSF = 0.23379 (36)
gca peak Left_Accumbens_area = 0.70037 (62)
gca peak Left_undetermined = 1.00000 (26)
gca peak Left_vessel = 0.75997 (52)
gca peak Left_choroid_plexus = 0.12089 (35)
gca peak Right_Inf_Lat_Vent = 0.24655 (23)
gca peak Right_Accumbens_area = 0.45042 (65)
gca peak Right_vessel = 0.82168 (52)
gca peak Right_choroid_plexus = 0.14516 (37)
gca peak Fifth_Ventricle = 0.65475 (32)
gca peak WM_hypointensities = 0.07854 (76)
gca peak non_WM_hypointensities = 0.08491 (43)
gca peak Optic_Chiasm = 0.71127 (75)
not using caudate to estimate GM means
estimating mean gm scale to be 1.08 x + 0.0
estimating mean wm scale to be 1.00 x + 0.0
estimating mean csf scale to be 1.01 x + 0.0
Left_Pallidum too bright - rescaling by 0.996 (from 1.045) to 99.9 (was 100.3)
saving intensity scales to aseg.auto_noCCseg.label_intensities.txt
renormalizing by structure alignment....
renormalizing input #0
gca peak = 0.17170 (17)
mri peak = 0.14781 (16)
Left_Lateral_Ventricle (4): linear fit = 0.99 x + 0.0 (2666 voxels, overlap=0.756)
Left_Lateral_Ventricle (4): linear fit = 0.99 x + 0.0 (2666 voxels, peak = 17), gca=16.7
gca peak = 0.18833 (15)
mri peak = 0.14982 (16)
Right_Lateral_Ventricle (43): linear fit = 0.98 x + 0.0 (2586 voxels, overlap=0.613)
Right_Lateral_Ventricle (43): linear fit = 0.98 x + 0.0 (2586 voxels, peak = 15), gca=14.6
gca peak = 0.29148 (100)
mri peak = 0.08588 (100)
Right_Pallidum (52): linear fit = 1.00 x + 0.0 (543 voxels, overlap=1.019)
Right_Pallidum (52): linear fit = 1.00 x + 0.0 (543 voxels, peak = 100), gca=100.5
gca peak = 0.15447 (99)
mri peak = 0.08334 (97)
Left_Pallidum (13): linear fit = 1.00 x + 0.0 (423 voxels, overlap=1.007)
Left_Pallidum (13): linear fit = 1.00 x + 0.0 (423 voxels, peak = 99), gca=99.0
gca peak = 0.27971 (58)
mri peak = 0.08999 (61)
Right_Hippocampus (53): linear fit = 1.00 x + 0.0 (717 voxels, overlap=0.996)
Right_Hippocampus (53): linear fit = 1.00 x + 0.0 (717 voxels, peak = 58), gca=58.0
gca peak = 0.31391 (58)
mri peak = 0.10839 (59)
Left_Hippocampus (17): linear fit = 1.00 x + 0.0 (783 voxels, overlap=1.001)
Left_Hippocampus (17): linear fit = 1.00 x + 0.0 (783 voxels, peak = 58), gca=58.0
gca peak = 0.07830 (102)
mri peak = 0.09980 (101)
Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (38659 voxels, overlap=0.801)
Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (38659 voxels, peak = 101), gca=101.5
gca peak = 0.08042 (104)
mri peak = 0.07704 (102)
Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (30517 voxels, overlap=0.852)
Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (30517 voxels, peak = 103), gca=103.5
gca peak = 0.08591 (66)
mri peak = 0.03696 (65)
Left_Cerebral_Cortex (3): linear fit = 1.03 x + 0.0 (20926 voxels, overlap=0.971)
Left_Cerebral_Cortex (3): linear fit = 1.03 x + 0.0 (20926 voxels, peak = 68), gca=68.3
gca peak = 0.09977 (69)
mri peak = 0.03539 (66)
Right_Cerebral_Cortex (42): linear fit = 0.99 x + 0.0 (14971 voxels, overlap=0.911)
Right_Cerebral_Cortex (42): linear fit = 0.99 x + 0.0 (14971 voxels, peak = 68), gca=68.0
gca peak = 0.31277 (66)
mri peak = 0.12191 (70)
Right_Caudate (50): linear fit = 1.00 x + 0.0 (819 voxels, overlap=1.007)
Right_Caudate (50): linear fit = 1.00 x + 0.0 (819 voxels, peak = 66), gca=66.0
gca peak = 0.13426 (62)
mri peak = 0.10001 (68)
Left_Caudate (11): linear fit = 0.99 x + 0.0 (135 voxels, overlap=0.922)
Left_Caudate (11): linear fit = 0.99 x + 0.0 (135 voxels, peak = 61), gca=61.1
gca peak = 0.12405 (63)
mri peak = 0.04751 (63)
Left_Cerebellum_Cortex (8): linear fit = 1.00 x + 0.0 (15298 voxels, overlap=0.996)
Left_Cerebellum_Cortex (8): linear fit = 1.00 x + 0.0 (15298 voxels, peak = 63), gca=63.0
gca peak = 0.12413 (68)
mri peak = 0.05472 (68)
Right_Cerebellum_Cortex (47): linear fit = 0.98 x + 0.0 (16481 voxels, overlap=0.993)
Right_Cerebellum_Cortex (47): linear fit = 0.98 x + 0.0 (16481 voxels, peak = 66), gca=66.3
gca peak = 0.15888 (90)
mri peak = 0.07301 (87)
Left_Cerebellum_White_Matter (7): linear fit = 0.98 x + 0.0 (6114 voxels, overlap=0.988)
Left_Cerebellum_White_Matter (7): linear fit = 0.98 x + 0.0 (6114 voxels, peak = 88), gca=87.8
gca peak = 0.15199 (85)
mri peak = 0.09559 (85)
Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (4715 voxels, overlap=0.970)
Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (4715 voxels, peak = 85), gca=84.6
gca peak = 0.29881 (61)
mri peak = 0.12455 (59)
Left_Amygdala (18): linear fit = 0.99 x + 0.0 (418 voxels, overlap=0.761)
Left_Amygdala (18): linear fit = 0.99 x + 0.0 (418 voxels, peak = 60), gca=60.1
gca peak = 0.34927 (60)
mri peak = 0.11896 (59)
Right_Amygdala (54): linear fit = 0.96 x + 0.0 (541 voxels, overlap=1.011)
Right_Amygdala (54): linear fit = 0.96 x + 0.0 (541 voxels, peak = 58), gca=57.9
gca peak = 0.11443 (86)
mri peak = 0.11252 (82)
Left_Thalamus_Proper (10): linear fit = 0.98 x + 0.0 (3347 voxels, overlap=0.946)
Left_Thalamus_Proper (10): linear fit = 0.98 x + 0.0 (3347 voxels, peak = 84), gca=83.8
gca peak = 0.09965 (80)
mri peak = 0.11287 (82)
Right_Thalamus_Proper (49): linear fit = 1.01 x + 0.0 (3872 voxels, overlap=0.971)
Right_Thalamus_Proper (49): linear fit = 1.01 x + 0.0 (3872 voxels, peak = 81), gca=81.2
gca peak = 0.08285 (84)
mri peak = 0.06651 (83)
Left_Putamen (12): linear fit = 1.00 x + 0.0 (1503 voxels, overlap=0.973)
Left_Putamen (12): linear fit = 1.00 x + 0.0 (1503 voxels, peak = 84), gca=84.0
gca peak = 0.08071 (85)
mri peak = 0.05774 (87)
Right_Putamen (51): linear fit = 0.98 x + 0.0 (2009 voxels, overlap=0.933)
Right_Putamen (51): linear fit = 0.98 x + 0.0 (2009 voxels, peak = 83), gca=82.9
gca peak = 0.07632 (86)
mri peak = 0.08761 (88)
Brain_Stem (16): linear fit = 1.01 x + 0.0 (13083 voxels, overlap=0.730)
Brain_Stem (16): linear fit = 1.01 x + 0.0 (13083 voxels, peak = 87), gca=87.3
gca peak = 0.11702 (95)
mri peak = 0.08507 (93)
Right_VentralDC (60): linear fit = 0.99 x + 0.0 (1315 voxels, overlap=0.804)
Right_VentralDC (60): linear fit = 0.99 x + 0.0 (1315 voxels, peak = 94), gca=93.6
gca peak = 0.16613 (89)
mri peak = 0.08917 (90)
Left_VentralDC (28): linear fit = 1.00 x + 0.0 (1235 voxels, overlap=0.930)
Left_VentralDC (28): linear fit = 1.00 x + 0.0 (1235 voxels, peak = 89), gca=88.6
gca peak = 0.16788 (26)
mri peak = 0.11111 (13)
gca peak = 0.18343 (17)
mri peak = 0.15592 (17)
Fourth_Ventricle (15): linear fit = 0.92 x + 0.0 (303 voxels, overlap=0.658)
Fourth_Ventricle (15): linear fit = 0.92 x + 0.0 (303 voxels, peak = 16), gca=15.6
gca peak Unknown = 0.94835 ( 0)
gca peak Left_Inf_Lat_Vent = 0.18140 (33)
gca peak Left_Thalamus = 0.64095 (100)
gca peak Third_Ventricle = 0.16788 (26)
gca peak CSF = 0.25858 (37)
gca peak Left_Accumbens_area = 0.70089 (56)
gca peak Left_undetermined = 1.00000 (26)
gca peak Left_vessel = 0.75997 (52)
gca peak Left_choroid_plexus = 0.12089 (35)
gca peak Right_Inf_Lat_Vent = 0.21972 (24)
gca peak Right_Accumbens_area = 0.34876 (65)
gca peak Right_vessel = 0.82168 (52)
gca peak Right_choroid_plexus = 0.14516 (37)
gca peak Fifth_Ventricle = 0.65358 (32)
gca peak WM_hypointensities = 0.07964 (76)
gca peak non_WM_hypointensities = 0.11534 (54)
gca peak Optic_Chiasm = 0.70934 (75)
not using caudate to estimate GM means
estimating mean gm scale to be 1.00 x + 0.0
estimating mean wm scale to be 1.00 x + 0.0
estimating mean csf scale to be 0.96 x + 0.0
Left_Pallidum too bright - rescaling by 1.004 (from 1.000) to 99.4 (was 99.0)
Right_Pallidum too bright - rescaling by 0.989 (from 1.005) to 99.4 (was 100.5)
saving intensity scales to aseg.auto_noCCseg.label_intensities.txt
saving sequentially combined intensity scales to aseg.auto_noCCseg.label_intensities.txt
84889 voxels changed in iteration 0 of unlikely voxel relabeling
374 voxels changed in iteration 1 of unlikely voxel relabeling
119 voxels changed in iteration 2 of unlikely voxel relabeling
3 voxels changed in iteration 3 of unlikely voxel relabeling
0 voxels changed in iteration 4 of unlikely voxel relabeling
66128 gm and wm labels changed (%23 to gray, %77 to white out of all changed labels)
457 hippocampal voxels changed.
0 amygdala voxels changed.
pass 1: 84093 changed. image ll: -2.190, PF=0.500
pass 2: 20765 changed. image ll: -2.189, PF=0.500
pass 3: 5765 changed.
pass 4: 1985 changed.
61511 voxels changed in iteration 0 of unlikely voxel relabeling
432 voxels changed in iteration 1 of unlikely voxel relabeling
13 voxels changed in iteration 2 of unlikely voxel relabeling
0 voxels changed in iteration 3 of unlikely voxel relabeling
10010 voxels changed in iteration 0 of unlikely voxel relabeling
236 voxels changed in iteration 1 of unlikely voxel relabeling
8 voxels changed in iteration 2 of unlikely voxel relabeling
0 voxels changed in iteration 3 of unlikely voxel relabeling
8151 voxels changed in iteration 0 of unlikely voxel relabeling
70 voxels changed in iteration 1 of unlikely voxel relabeling
1 voxels changed in iteration 2 of unlikely voxel relabeling
0 voxels changed in iteration 3 of unlikely voxel relabeling
7937 voxels changed in iteration 0 of unlikely voxel relabeling
30 voxels changed in iteration 1 of unlikely voxel relabeling
3 voxels changed in iteration 2 of unlikely voxel relabeling
3 voxels changed in iteration 3 of unlikely voxel relabeling
0 voxels changed in iteration 4 of unlikely voxel relabeling
MRItoUCHAR: min=0, max=85
MRItoUCHAR: converting to UCHAR
writing labeled volume to aseg.auto_noCCseg.mgz
mri_ca_label utimesec    6220.513450
mri_ca_label stimesec    92.045956
mri_ca_label ru_maxrss   2046436
mri_ca_label ru_ixrss    0
mri_ca_label ru_idrss    0
mri_ca_label ru_isrss    0
mri_ca_label ru_minflt   53989524
mri_ca_label ru_majflt   8100
mri_ca_label ru_nswap    0
mri_ca_label ru_inblock  106184
mri_ca_label ru_oublock  528
mri_ca_label ru_msgsnd   0
mri_ca_label ru_msgrcv   0
mri_ca_label ru_nsignals 0
mri_ca_label ru_nvcsw    8195
mri_ca_label ru_nivcsw   10527
auto-labeling took 105 minutes and 33 seconds.

 mri_cc -aseg aseg.auto_noCCseg.mgz -o aseg.auto.mgz -lta /study2/emowrap/data/freesurfer/subjects/066/mri/transforms/cc_up.lta 066

will read input aseg from aseg.auto_noCCseg.mgz
writing aseg with cc labels to aseg.auto.mgz
will write lta as /study2/emowrap/data/freesurfer/subjects/066/mri/transforms/cc_up.lta
reading aseg from /study2/emowrap/data/freesurfer/subjects/066/mri/aseg.auto_noCCseg.mgz
reading norm from /study2/emowrap/data/freesurfer/subjects/066/mri/norm.mgz
41202 voxels in left wm, 101873 in right wm, xrange [118, 136]
searching rotation angles z=[-11  3], y=[-11  3]

searching scale 1 Z rot -11.1
searching scale 1 Z rot -10.9  earching scale 1 Z rot -10.6  
srching scale 1 Z rot -10.4  
seahing scale 1 Z rot -10.1  
searcng scale 1 Z rot -9.9  
searchi scale 1 Z rot -9.6  
searchingcale 1 Z rot -9.4  
searching sle 1 Z rot -9.1  
searching sca 1 Z rot -8.9  
searching scale Z rot -8.6  
searching scale 1 rot -8.4  
searching scale 1 Zot -8.1  
searching scale 1 Z r -7.9  
searching scale 1 Z rot7.6  
searching scale 1 Z rot -4  
searching scale 1 Z rot -7. 
searching scale 1 Z rot -6.9 searching scale 1 Z rot -6.6  
arching scale 1 Z rot -6.4  
seching scale 1 Z rot -6.1  
searing scale 1 Z rot -5.9  
searchg scale 1 Z rot -5.6  
searchinscale 1 Z rot -5.4  
searching ale 1 Z rot -5.1  
searching sce 1 Z rot -4.9  
searching scal1 Z rot -4.6  
searching scale Z rot -4.4  
searching scale 1 rot -4.1  
searching scale 1 Z t -3.9  
searching scale 1 Z ro-3.6  
searching scale 1 Z rot .4  
searching scale 1 Z rot -3  
searching scale 1 Z rot -2.9
searching scale 1 Z rot -2.6  earching scale 1 Z rot -2.4  
srching scale 1 Z rot -2.1  
seahing scale 1 Z rot -1.9  
searcng scale 1 Z rot -1.6  
searchi scale 1 Z rot -1.4  
searchingcale 1 Z rot -1.1  
searching sle 1 Z rot -0.9  
searching sca 1 Z rot -0.6  
searching scale Z rot -0.4  
searching scale 1 rot -0.1  
searching scale 1 Zot 0.1  
searching scale 1 Z ro0.4  
searching scale 1 Z rot 0  
searching scale 1 Z rot 0.9
searching scale 1 Z rot 1.1  earching scale 1 Z rot 1.4  
srching scale 1 Z rot 1.6  
seahing scale 1 Z rot 1.9  
searcng scale 1 Z rot 2.1  
searchi scale 1 Z rot 2.4  
searchingcale 1 Z rot 2.6  global minim found at slice 128.4, rotatio (-3.79, -4.14)
final transformation (x=128.4, yr=-3.786, zr=-4.138):
 0.99522   0.07217  -0.06585  -1.56560;
-0.07201   0.99739   0.00476   18.06371;
 0.06602  -0.00000   0.99782   15.74676;
 0.00000   0.00000   0.00000   1.00000;
updating x range to be [126, 131] in xformed coordinates
best xformed slice 128
cc center is found at 128 119 104
eigenvectors:
 0.00273  -0.00573   0.99998;
-0.25702  -0.96639  -0.00484;
 0.96640  -0.25700  -0.00411;
writing aseg with callosum to /study2/emowrap/data/freesurfer/subjects/066/mri/aseg.auto.mgz...
corpus callosum segmentation took 1.3 minutes
#--------------------------------------
#@# Merge ASeg Wed Jan  8 22:47:24 CST 2020

 cp aseg.auto.mgz aseg.presurf.mgz

#--------------------------------------------
#@# Intensity Normalization2 Wed Jan  8 22:47:24 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/mri

 mri_normalize -mprage -aseg aseg.presurf.mgz -mask brainmask.mgz norm.mgz brain.mgz

assuming input volume is MGH (Van der Kouwe) MP-RAGE
using segmentation for initial intensity normalization
using MR volume brainmask.mgz to mask input volume...
reading from norm.mgz...
Reading aseg aseg.presurf.mgz
normalizing image...
processing with aseg
removing outliers in the aseg WM...
1139 control points removed
Building bias image
building Voronoi diagram...
performing soap bubble smoothing, sigma = 0...
Smoothing with sigma 8
Applying bias correction
building Voronoi diagram...
performing soap bubble smoothing, sigma = 8...

Iterating 2 times
---------------------------------
3d normalization pass 1 of 2
white matter peak found at 110
white matter peak found at 109
gm peak at 74 (74), valley at 35 (35)
csf peak at 10, setting threshold to 52
building Voronoi diagram...
performing soap bubble smoothing, sigma = 8...
---------------------------------
3d normalization pass 2 of 2
white matter peak found at 110
white matter peak found at 110
gm peak at 71 (71), valley at 47 (47)
csf peak at 10, setting threshold to 50
building Voronoi diagram...
performing soap bubble smoothing, sigma = 8...
Done iterating ---------------------------------
writing output to brain.mgz
3D bias adjustment took 4 minutes and 57 seconds.
#--------------------------------------------
#@# Mask BFS Wed Jan  8 22:52:24 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/mri

 mri_mask -T 5 brain.mgz brainmask.mgz brain.finalsurfs.mgz

threshold mask volume at 5
DoAbs = 0
Found 1547130 voxels in mask (pct=  9.22)
Writing masked volume to brain.finalsurfs.mgz...done.
#--------------------------------------------
#@# WM Segmentation Wed Jan  8 22:52:27 CST 2020

 mri_segment -mprage brain.mgz wm.seg.mgz

doing initial intensity segmentation...
using local statistics to label ambiguous voxels...
computing class statistics for intensity windows...
WM (105.0): 105.4 +- 5.9 [79.0 --> 125.0]
GM (69.0) : 66.4 +- 11.8 [30.0 --> 95.0]
setting bottom of white matter range to 78.1
setting top of gray matter range to 89.9
doing initial intensity segmentation...
using local statistics to label ambiguous voxels...
using local geometry to label remaining ambiguous voxels...

reclassifying voxels using Gaussian border classifier...

removing voxels with positive offset direction...
smoothing T1 volume with sigma = 0.250
removing 1-dimensional structures...
12837 sparsely connected voxels removed...
thickening thin strands....
20 segments, 4247 filled
4171 bright non-wm voxels segmented.
5846 diagonally connected voxels added...
white matter segmentation took 2.7 minutes
writing output to wm.seg.mgz...
assuming input volume is MGH (Van der Kouwe) MP-RAGE

 mri_edit_wm_with_aseg -keep-in wm.seg.mgz brain.mgz aseg.presurf.mgz wm.asegedit.mgz

preserving editing changes in input volume...
auto filling took 0.87 minutes
reading wm segmentation from wm.seg.mgz...
117 voxels added to wm to prevent paths from MTL structures to cortex
4413 additional wm voxels added
0 additional wm voxels added
SEG EDIT: 59378 voxels turned on, 49085 voxels turned off.
propagating editing to output volume from wm.seg.mgz
115,126,128 old 0   new 0
115,126,128 old 0   new 0
writing edited volume to wm.asegedit.mgz....

 mri_pretess wm.asegedit.mgz wm norm.mgz wm.mgz


Iteration Number : 1
pass   1 (xy+):  46 found -  46 modified     |    TOTAL:  46
pass   2 (xy+):   0 found -  46 modified     |    TOTAL:  46
pass   1 (xy-):  47 found -  47 modified     |    TOTAL:  93
pass   2 (xy-):   0 found -  47 modified     |    TOTAL:  93
pass   1 (yz+):  37 found -  37 modified     |    TOTAL: 130
pass   2 (yz+):   0 found -  37 modified     |    TOTAL: 130
pass   1 (yz-):  40 found -  40 modified     |    TOTAL: 170
pass   2 (yz-):   0 found -  40 modified     |    TOTAL: 170
pass   1 (xz+):  32 found -  32 modified     |    TOTAL: 202
pass   2 (xz+):   0 found -  32 modified     |    TOTAL: 202
pass   1 (xz-):  31 found -  31 modified     |    TOTAL: 233
pass   2 (xz-):   0 found -  31 modified     |    TOTAL: 233
Iteration Number : 1
pass   1 (+++):  37 found -  37 modified     |    TOTAL:  37
pass   2 (+++):   0 found -  37 modified     |    TOTAL:  37
pass   1 (+++):  42 found -  42 modified     |    TOTAL:  79
pass   2 (+++):   0 found -  42 modified     |    TOTAL:  79
pass   1 (+++):  51 found -  51 modified     |    TOTAL: 130
pass   2 (+++):   0 found -  51 modified     |    TOTAL: 130
pass   1 (+++):  59 found -  59 modified     |    TOTAL: 189
pass   2 (+++):   0 found -  59 modified     |    TOTAL: 189
Iteration Number : 1
pass   1 (++): 151 found - 151 modified     |    TOTAL: 151
pass   2 (++):   0 found - 151 modified     |    TOTAL: 151
pass   1 (+-): 180 found - 180 modified     |    TOTAL: 331
pass   2 (+-):   0 found - 180 modified     |    TOTAL: 331
pass   1 (--): 173 found - 173 modified     |    TOTAL: 504
pass   2 (--):   0 found - 173 modified     |    TOTAL: 504
pass   1 (-+): 196 found - 196 modified     |    TOTAL: 700
pass   2 (-+):   0 found - 196 modified     |    TOTAL: 700
Iteration Number : 2
pass   1 (xy+):  15 found -  15 modified     |    TOTAL:  15
pass   2 (xy+):   0 found -  15 modified     |    TOTAL:  15
pass   1 (xy-):  23 found -  23 modified     |    TOTAL:  38
pass   2 (xy-):   0 found -  23 modified     |    TOTAL:  38
pass   1 (yz+):  22 found -  22 modified     |    TOTAL:  60
pass   2 (yz+):   0 found -  22 modified     |    TOTAL:  60
pass   1 (yz-):  18 found -  18 modified     |    TOTAL:  78
pass   2 (yz-):   0 found -  18 modified     |    TOTAL:  78
pass   1 (xz+):  14 found -  14 modified     |    TOTAL:  92
pass   2 (xz+):   0 found -  14 modified     |    TOTAL:  92
pass   1 (xz-):  25 found -  25 modified     |    TOTAL: 117
pass   2 (xz-):   0 found -  25 modified     |    TOTAL: 117
Iteration Number : 2
pass   1 (+++):   1 found -   1 modified     |    TOTAL:   1
pass   2 (+++):   0 found -   1 modified     |    TOTAL:   1
pass   1 (+++):  10 found -  10 modified     |    TOTAL:  11
pass   2 (+++):   0 found -  10 modified     |    TOTAL:  11
pass   1 (+++):   4 found -   4 modified     |    TOTAL:  15
pass   2 (+++):   0 found -   4 modified     |    TOTAL:  15
pass   1 (+++):  10 found -  10 modified     |    TOTAL:  25
pass   2 (+++):   0 found -  10 modified     |    TOTAL:  25
Iteration Number : 2
pass   1 (++):  11 found -  11 modified     |    TOTAL:  11
pass   2 (++):   0 found -  11 modified     |    TOTAL:  11
pass   1 (+-):  12 found -  12 modified     |    TOTAL:  23
pass   2 (+-):   0 found -  12 modified     |    TOTAL:  23
pass   1 (--):   5 found -   5 modified     |    TOTAL:  28
pass   2 (--):   0 found -   5 modified     |    TOTAL:  28
pass   1 (-+):   8 found -   8 modified     |    TOTAL:  36
pass   2 (-+):   0 found -   8 modified     |    TOTAL:  36
Iteration Number : 3
pass   1 (xy+):   5 found -   5 modified     |    TOTAL:   5
pass   2 (xy+):   0 found -   5 modified     |    TOTAL:   5
pass   1 (xy-):   2 found -   2 modified     |    TOTAL:   7
pass   2 (xy-):   0 found -   2 modified     |    TOTAL:   7
pass   1 (yz+):   2 found -   2 modified     |    TOTAL:   9
pass   2 (yz+):   0 found -   2 modified     |    TOTAL:   9
pass   1 (yz-):   2 found -   2 modified     |    TOTAL:  11
pass   2 (yz-):   0 found -   2 modified     |    TOTAL:  11
pass   1 (xz+):   0 found -   0 modified     |    TOTAL:  11
pass   1 (xz-):   2 found -   2 modified     |    TOTAL:  13
pass   2 (xz-):   0 found -   2 modified     |    TOTAL:  13
Iteration Number : 3
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   2 found -   2 modified     |    TOTAL:   2
pass   2 (+++):   0 found -   2 modified     |    TOTAL:   2
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   2
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   2
Iteration Number : 3
pass   1 (++):   1 found -   1 modified     |    TOTAL:   1
pass   2 (++):   0 found -   1 modified     |    TOTAL:   1
pass   1 (+-):   0 found -   0 modified     |    TOTAL:   1
pass   1 (--):   1 found -   1 modified     |    TOTAL:   2
pass   2 (--):   0 found -   1 modified     |    TOTAL:   2
pass   1 (-+):   3 found -   3 modified     |    TOTAL:   5
pass   2 (-+):   0 found -   3 modified     |    TOTAL:   5
Iteration Number : 4
pass   1 (xy+):   0 found -   0 modified     |    TOTAL:   0
pass   1 (xy-):   0 found -   0 modified     |    TOTAL:   0
pass   1 (yz+):   0 found -   0 modified     |    TOTAL:   0
pass   1 (yz-):   0 found -   0 modified     |    TOTAL:   0
pass   1 (xz+):   0 found -   0 modified     |    TOTAL:   0
pass   1 (xz-):   0 found -   0 modified     |    TOTAL:   0
Iteration Number : 4
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
Iteration Number : 4
pass   1 (++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+-):   0 found -   0 modified     |    TOTAL:   0
pass   1 (--):   0 found -   0 modified     |    TOTAL:   0
pass   1 (-+):   0 found -   0 modified     |    TOTAL:   0

Total Number of Modified Voxels = 1320 (out of 560673: 0.235431)
binarizing input wm segmentation...
Ambiguous edge configurations...

mri_pretess done

#--------------------------------------------
#@# Fill Wed Jan  8 22:56:07 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/mri

 mri_fill -a ../scripts/ponscc.cut.log -xform transforms/talairach.lta -segmentation aseg.auto_noCCseg.mgz wm.mgz filled.mgz

logging cutting plane coordinates to ../scripts/ponscc.cut.log...
INFO: Using transforms/talairach.lta and its offset for Talairach volume ...
using segmentation aseg.auto_noCCseg.mgz...
reading input volume...done.
searching for cutting planes...voxel to talairach voxel transform
 1.10483   0.11430  -0.01831  -28.09366;
-0.10253   1.09980   0.22423  -31.51505;
 0.00209  -0.17518   0.93346   14.73921;
 0.00000   0.00000   0.00000   1.00000;
voxel to talairach voxel transform
 1.10483   0.11430  -0.01831  -28.09366;
-0.10253   1.09980   0.22423  -31.51505;
 0.00209  -0.17518   0.93346   14.73921;
 0.00000   0.00000   0.00000   1.00000;
reading segmented volume aseg.auto_noCCseg.mgz...
Looking for area (min, max) = (350, 1400)
area[0] = 2705 (min = 350, max = 1400), aspect = 1.33 (min = 0.10, max = 0.75)
need search nearby
using seed (125, 111, 89), TAL = (3.0, -39.0, 17.0)
talairach voxel to voxel transform
 0.89696  -0.08709   0.03851   21.88677;
 0.08093   0.86789  -0.20689   32.67467;
 0.01318   0.16307   1.03237  -9.70692;
 0.00000   0.00000   0.00000   1.00000;
segmentation indicates cc at (125,  111,  89) --> (3.0, -39.0, 17.0)
done.
writing output to filled.mgz...
filling took 1.0 minutes
talairach cc position changed to (3.00, -39.00, 17.00)
Erasing brainstem...done.
seed_search_size = 9, min_neighbors = 5
search rh wm seed point around talairach space:(21.00, -39.00, 17.00) SRC: (111.62, 119.26, 101.69)
search lh wm seed point around talairach space (-15.00, -39.00, 17.00), SRC: (143.91, 122.17, 102.16)
compute mri_fill using aseg
Erasing Brain Stem and Cerebellum ...
Define left and right masks using aseg:
Building Voronoi diagram ...
Using the Voronoi diagram to separate WM into two hemispheres ...
Find the largest connected component for each hemisphere ...
#--------------------------------------------
#@# Tessellate lh Wed Jan  8 22:57:05 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mri_pretess ../mri/filled.mgz 255 ../mri/norm.mgz ../mri/filled-pretess255.mgz


Iteration Number : 1
pass   1 (xy+):   2 found -   2 modified     |    TOTAL:   2
pass   2 (xy+):   0 found -   2 modified     |    TOTAL:   2
pass   1 (xy-):   4 found -   4 modified     |    TOTAL:   6
pass   2 (xy-):   0 found -   4 modified     |    TOTAL:   6
pass   1 (yz+):   1 found -   1 modified     |    TOTAL:   7
pass   2 (yz+):   0 found -   1 modified     |    TOTAL:   7
pass   1 (yz-):   3 found -   3 modified     |    TOTAL:  10
pass   2 (yz-):   0 found -   3 modified     |    TOTAL:  10
pass   1 (xz+):   5 found -   5 modified     |    TOTAL:  15
pass   2 (xz+):   0 found -   5 modified     |    TOTAL:  15
pass   1 (xz-):   1 found -   1 modified     |    TOTAL:  16
pass   2 (xz-):   0 found -   1 modified     |    TOTAL:  16
Iteration Number : 1
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
Iteration Number : 1
pass   1 (++):   2 found -   2 modified     |    TOTAL:   2
pass   2 (++):   0 found -   2 modified     |    TOTAL:   2
pass   1 (+-):   3 found -   3 modified     |    TOTAL:   5
pass   2 (+-):   0 found -   3 modified     |    TOTAL:   5
pass   1 (--):   2 found -   2 modified     |    TOTAL:   7
pass   2 (--):   0 found -   2 modified     |    TOTAL:   7
pass   1 (-+):   0 found -   0 modified     |    TOTAL:   7
Iteration Number : 2
pass   1 (xy+):   0 found -   0 modified     |    TOTAL:   0
pass   1 (xy-):   0 found -   0 modified     |    TOTAL:   0
pass   1 (yz+):   0 found -   0 modified     |    TOTAL:   0
pass   1 (yz-):   0 found -   0 modified     |    TOTAL:   0
pass   1 (xz+):   0 found -   0 modified     |    TOTAL:   0
pass   1 (xz-):   0 found -   0 modified     |    TOTAL:   0
Iteration Number : 2
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
Iteration Number : 2
pass   1 (++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+-):   0 found -   0 modified     |    TOTAL:   0
pass   1 (--):   0 found -   0 modified     |    TOTAL:   0
pass   1 (-+):   0 found -   0 modified     |    TOTAL:   0

Total Number of Modified Voxels = 23 (out of 256253: 0.008976)
Ambiguous edge configurations...

mri_pretess done


 mri_tessellate ../mri/filled-pretess255.mgz 255 ../surf/lh.orig.nofix

$Id: mri_tessellate.c,v 1.38.2.1 2016/07/26 18:46:38 zkaufman Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
slice 40: 588 vertices, 697 faces
slice 50: 7253 vertices, 7553 faces
slice 60: 15555 vertices, 15937 faces
slice 70: 25539 vertices, 25995 faces
slice 80: 36800 vertices, 37267 faces
slice 90: 47895 vertices, 48368 faces
slice 100: 59467 vertices, 59978 faces
slice 110: 71982 vertices, 72500 faces
slice 120: 83499 vertices, 83978 faces
slice 130: 94245 vertices, 94770 faces
slice 140: 106321 vertices, 106913 faces
slice 150: 118683 vertices, 119188 faces
slice 160: 128334 vertices, 128863 faces
slice 170: 136698 vertices, 137182 faces
slice 180: 144400 vertices, 144861 faces
slice 190: 150175 vertices, 150576 faces
slice 200: 154804 vertices, 155163 faces
slice 210: 155604 vertices, 155832 faces
slice 220: 155604 vertices, 155832 faces
slice 230: 155604 vertices, 155832 faces
slice 240: 155604 vertices, 155832 faces
slice 250: 155604 vertices, 155832 faces
using the conformed surface RAS to save vertex points...
writing ../surf/lh.orig.nofix
using vox2ras matrix:
-1.00000   0.00000   0.00000   128.00000;
 0.00000   0.00000   1.00000  -128.00000;
 0.00000  -1.00000   0.00000   128.00000;
 0.00000   0.00000   0.00000   1.00000;

 rm -f ../mri/filled-pretess255.mgz


 mris_extract_main_component ../surf/lh.orig.nofix ../surf/lh.orig.nofix


counting number of connected components...
   155604 voxel in cpt #1: X=-228 [v=155604,e=467496,f=311664] located at (-27.076014, -12.855742, 5.711203)
For the whole surface: X=-228 [v=155604,e=467496,f=311664]
One single component has been found
nothing to do
done

#--------------------------------------------
#@# Tessellate rh Wed Jan  8 22:57:19 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mri_pretess ../mri/filled.mgz 127 ../mri/norm.mgz ../mri/filled-pretess127.mgz


Iteration Number : 1
pass   1 (xy+):   1 found -   1 modified     |    TOTAL:   1
pass   2 (xy+):   0 found -   1 modified     |    TOTAL:   1
pass   1 (xy-):   0 found -   0 modified     |    TOTAL:   1
pass   1 (yz+):   0 found -   0 modified     |    TOTAL:   1
pass   1 (yz-):   0 found -   0 modified     |    TOTAL:   1
pass   1 (xz+):   1 found -   1 modified     |    TOTAL:   2
pass   2 (xz+):   0 found -   1 modified     |    TOTAL:   2
pass   1 (xz-):   0 found -   0 modified     |    TOTAL:   2
Iteration Number : 1
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
Iteration Number : 1
pass   1 (++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+-):   0 found -   0 modified     |    TOTAL:   0
pass   1 (--):   0 found -   0 modified     |    TOTAL:   0
pass   1 (-+):   0 found -   0 modified     |    TOTAL:   0
Iteration Number : 2
pass   1 (xy+):   0 found -   0 modified     |    TOTAL:   0
pass   1 (xy-):   0 found -   0 modified     |    TOTAL:   0
pass   1 (yz+):   0 found -   0 modified     |    TOTAL:   0
pass   1 (yz-):   0 found -   0 modified     |    TOTAL:   0
pass   1 (xz+):   0 found -   0 modified     |    TOTAL:   0
pass   1 (xz-):   0 found -   0 modified     |    TOTAL:   0
Iteration Number : 2
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
Iteration Number : 2
pass   1 (++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+-):   0 found -   0 modified     |    TOTAL:   0
pass   1 (--):   0 found -   0 modified     |    TOTAL:   0
pass   1 (-+):   0 found -   0 modified     |    TOTAL:   0

Total Number of Modified Voxels = 2 (out of 282054: 0.000709)
Ambiguous edge configurations...

mri_pretess done


 mri_tessellate ../mri/filled-pretess127.mgz 127 ../surf/rh.orig.nofix

$Id: mri_tessellate.c,v 1.38.2.1 2016/07/26 18:46:38 zkaufman Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
slice 40: 88 vertices, 117 faces
slice 50: 4166 vertices, 4410 faces
slice 60: 11633 vertices, 11935 faces
slice 70: 21561 vertices, 22006 faces
slice 80: 32782 vertices, 33208 faces
slice 90: 43466 vertices, 43852 faces
slice 100: 55025 vertices, 55493 faces
slice 110: 67377 vertices, 67907 faces
slice 120: 80009 vertices, 80535 faces
slice 130: 92190 vertices, 92701 faces
slice 140: 104353 vertices, 104903 faces
slice 150: 116116 vertices, 116652 faces
slice 160: 127004 vertices, 127563 faces
slice 170: 135897 vertices, 136366 faces
slice 180: 144175 vertices, 144620 faces
slice 190: 150943 vertices, 151361 faces
slice 200: 156417 vertices, 156798 faces
slice 210: 159269 vertices, 159546 faces
slice 220: 159558 vertices, 159782 faces
slice 230: 159558 vertices, 159782 faces
slice 240: 159558 vertices, 159782 faces
slice 250: 159558 vertices, 159782 faces
using the conformed surface RAS to save vertex points...
writing ../surf/rh.orig.nofix
using vox2ras matrix:
-1.00000   0.00000   0.00000   128.00000;
 0.00000   0.00000   1.00000  -128.00000;
 0.00000  -1.00000   0.00000   128.00000;
 0.00000   0.00000   0.00000   1.00000;

 rm -f ../mri/filled-pretess127.mgz


 mris_extract_main_component ../surf/rh.orig.nofix ../surf/rh.orig.nofix


counting number of connected components...
   159558 voxel in cpt #1: X=-224 [v=159558,e=479346,f=319564] located at (26.241781, -8.160963, 10.504513)
For the whole surface: X=-224 [v=159558,e=479346,f=319564]
One single component has been found
nothing to do
done

#--------------------------------------------
#@# Smooth1 lh Wed Jan  8 22:57:32 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_smooth -nw -seed 1234 ../surf/lh.orig.nofix ../surf/lh.smoothwm.nofix

setting seed for random number generator to 1234
smoothing surface tessellation for 10 iterations...
smoothing complete - recomputing first and second fundamental forms...
#--------------------------------------------
#@# Smooth1 rh Wed Jan  8 22:57:43 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_smooth -nw -seed 1234 ../surf/rh.orig.nofix ../surf/rh.smoothwm.nofix

setting seed for random number generator to 1234
smoothing surface tessellation for 10 iterations...
smoothing complete - recomputing first and second fundamental forms...
#--------------------------------------------
#@# Inflation1 lh Wed Jan  8 22:57:53 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_inflate -no-save-sulc ../surf/lh.smoothwm.nofix ../surf/lh.inflated.nofix

Not saving sulc
Reading ../surf/lh.smoothwm.nofix
avg radius = 48.8 mm, total surface area = 80850 mm^2
writing inflated surface to ../surf/lh.inflated.nofix
inflation took 0.9 minutes

step 000: RMS=0.168 (target=0.015)
step 005: RMS=0.130 (target=0.015)   ep 010: RMS=0.105 (target=0.015)   
st015: RMS=0.094 (target=0.015)   
step : RMS=0.085 (target=0.015)   
step 025MS=0.079 (target=0.015)   
step 030: R0.074 (target=0.015)   
step 035: RMS=71 (target=0.015)   
step 040: RMS=0.0(target=0.015)   
step 045: RMS=0.066 rget=0.015)   
step 050: RMS=0.066 (tat=0.015)   
step 055: RMS=0.066 (targe.015)   
step 060: RMS=0.066 (target=05)   
inflation complete.
Not saving sulc
mris_inflate utimesec    53.963504
mris_inflate stimesec    0.567984
mris_inflate ru_maxrss   199604
mris_inflate ru_ixrss    0
mris_inflate ru_idrss    0
mris_inflate ru_isrss    0
mris_inflate ru_minflt   464749
mris_inflate ru_majflt   0
mris_inflate ru_nswap    0
mris_inflate ru_inblock  0
mris_inflate ru_oublock  10960
mris_inflate ru_msgsnd   0
mris_inflate ru_msgrcv   0
mris_inflate ru_nsignals 0
mris_inflate ru_nvcsw    126
mris_inflate ru_nivcsw   72
#--------------------------------------------
#@# Inflation1 rh Wed Jan  8 22:58:48 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_inflate -no-save-sulc ../surf/rh.smoothwm.nofix ../surf/rh.inflated.nofix

Not saving sulc
Reading ../surf/rh.smoothwm.nofix
avg radius = 49.1 mm, total surface area = 83002 mm^2
writing inflated surface to ../surf/rh.inflated.nofix
inflation took 0.9 minutes

step 000: RMS=0.167 (target=0.015)
step 005: RMS=0.130 (target=0.015)   ep 010: RMS=0.104 (target=0.015)   
st015: RMS=0.093 (target=0.015)   
step : RMS=0.085 (target=0.015)   
step 025MS=0.079 (target=0.015)   
step 030: R0.074 (target=0.015)   
step 035: RMS=69 (target=0.015)   
step 040: RMS=0.0(target=0.015)   
step 045: RMS=0.063 rget=0.015)   
step 050: RMS=0.061 (tat=0.015)   
step 055: RMS=0.060 (targe.015)   
step 060: RMS=0.060 (target=05)   
inflation complete.
Not saving sulc
mris_inflate utimesec    54.937862
mris_inflate stimesec    0.434990
mris_inflate ru_maxrss   204672
mris_inflate ru_ixrss    0
mris_inflate ru_idrss    0
mris_inflate ru_isrss    0
mris_inflate ru_minflt   308945
mris_inflate ru_majflt   0
mris_inflate ru_nswap    0
mris_inflate ru_inblock  0
mris_inflate ru_oublock  11240
mris_inflate ru_msgsnd   0
mris_inflate ru_msgrcv   0
mris_inflate ru_nsignals 0
mris_inflate ru_nvcsw    182
mris_inflate ru_nivcsw   78
#--------------------------------------------
#@# QSphere lh Wed Jan  8 22:59:43 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_sphere -q -seed 1234 ../surf/lh.inflated.nofix ../surf/lh.qsphere.nofix

doing quick spherical unfolding.
setting seed for random number genererator to 1234
$Id: mris_sphere.c,v 1.61 2016/01/20 23:42:15 greve Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading original vertex positions...
unfolding cortex into spherical form...
surface projected - minimizing metric distortion...
vertex spacing 0.90 +- 0.61 (0.00-->7.05) (max @ vno 67901 --> 69121)
face area 0.02 +- 0.03 (-0.10-->0.81)

== Number of threads available to mris_sphere for OpenMP = 1 ==
scaling brain by 0.292...
inflating to sphere (rms error < 2.00)
000: dt: 0.0000, rms radial error=176.591, avgs=0
005/300: dt: 0.9000, rms radial error=176.339, avgs=0
010/300: dt: 0.9000, rms radial error=175.797, avgs=0
015/300: dt: 0.9000, rms radial error=175.084, avgs=0
020/300: dt: 0.9000, rms radial error=174.264, avgs=0
025/300: dt: 0.9000, rms radial error=173.380, avgs=0
030/300: dt: 0.9000, rms radial error=172.464, avgs=0
035/300: dt: 0.9000, rms radial error=171.532, avgs=0
040/300: dt: 0.9000, rms radial error=170.591, avgs=0
045/300: dt: 0.9000, rms radial error=169.648, avgs=0
050/300: dt: 0.9000, rms radial error=168.706, avgs=0
055/300: dt: 0.9000, rms radial error=167.765, avgs=0
060/300: dt: 0.9000, rms radial error=166.829, avgs=0
065/300: dt: 0.9000, rms radial error=165.896, avgs=0
070/300: dt: 0.9000, rms radial error=164.968, avgs=0
075/300: dt: 0.9000, rms radial error=164.045, avgs=0
080/300: dt: 0.9000, rms radial error=163.128, avgs=0
085/300: dt: 0.9000, rms radial error=162.215, avgs=0
090/300: dt: 0.9000, rms radial error=161.307, avgs=0
095/300: dt: 0.9000, rms radial error=160.404, avgs=0
100/300: dt: 0.9000, rms radial error=159.506, avgs=0
105/300: dt: 0.9000, rms radial error=158.612, avgs=0
110/300: dt: 0.9000, rms radial error=157.722, avgs=0
115/300: dt: 0.9000, rms radial error=156.837, avgs=0
120/300: dt: 0.9000, rms radial error=155.957, avgs=0
125/300: dt: 0.9000, rms radial error=155.081, avgs=0
130/300: dt: 0.9000, rms radial error=154.209, avgs=0
135/300: dt: 0.9000, rms radial error=153.343, avgs=0
140/300: dt: 0.9000, rms radial error=152.481, avgs=0
145/300: dt: 0.9000, rms radial error=151.624, avgs=0
150/300: dt: 0.9000, rms radial error=150.771, avgs=0
155/300: dt: 0.9000, rms radial error=149.923, avgs=0
160/300: dt: 0.9000, rms radial error=149.080, avgs=0
165/300: dt: 0.9000, rms radial error=148.241, avgs=0
170/300: dt: 0.9000, rms radial error=147.407, avgs=0
175/300: dt: 0.9000, rms radial error=146.577, avgs=0
180/300: dt: 0.9000, rms radial error=145.751, avgs=0
185/300: dt: 0.9000, rms radial error=144.930, avgs=0
190/300: dt: 0.9000, rms radial error=144.114, avgs=0
195/300: dt: 0.9000, rms radial error=143.302, avgs=0
200/300: dt: 0.9000, rms radial error=142.495, avgs=0
205/300: dt: 0.9000, rms radial error=141.692, avgs=0
210/300: dt: 0.9000, rms radial error=140.893, avgs=0
215/300: dt: 0.9000, rms radial error=140.099, avgs=0
220/300: dt: 0.9000, rms radial error=139.309, avgs=0
225/300: dt: 0.9000, rms radial error=138.523, avgs=0
230/300: dt: 0.9000, rms radial error=137.742, avgs=0
235/300: dt: 0.9000, rms radial error=136.965, avgs=0
240/300: dt: 0.9000, rms radial error=136.193, avgs=0
245/300: dt: 0.9000, rms radial error=135.424, avgs=0
250/300: dt: 0.9000, rms radial error=134.660, avgs=0
255/300: dt: 0.9000, rms radial error=133.901, avgs=0
260/300: dt: 0.9000, rms radial error=133.145, avgs=0
265/300: dt: 0.9000, rms radial error=132.394, avgs=0
270/300: dt: 0.9000, rms radial error=131.647, avgs=0
275/300: dt: 0.9000, rms radial error=130.903, avgs=0
280/300: dt: 0.9000, rms radial error=130.164, avgs=0
285/300: dt: 0.9000, rms radial error=129.429, avgs=0
290/300: dt: 0.9000, rms radial error=128.699, avgs=0
295/300: dt: 0.9000, rms radial error=127.972, avgs=0
300/300: dt: 0.9000, rms radial error=127.249, avgs=0

spherical inflation complete.
epoch 1 (K=10.0), pass 1, starting sse = 18720.25
taking momentum steps...
taking momentum steps...
taking momentum steps...
pass 1 complete, delta sse/iter = 0.00/10 = 0.00010
epoch 2 (K=40.0), pass 1, starting sse = 3395.82
taking momentum steps...
taking momentum steps...
taking momentum steps...
pass 1 complete, delta sse/iter = 0.00/10 = 0.00008
epoch 3 (K=160.0), pass 1, starting sse = 451.98
taking momentum steps...
taking momentum steps...
taking momentum steps...
pass 1 complete, delta sse/iter = 0.04/10 = 0.00360
epoch 4 (K=640.0), pass 1, starting sse = 59.39
taking momentum steps...
taking momentum steps...
taking momentum steps...
pass 1 complete, delta sse/iter = 0.08/11 = 0.00764
final distance error %31.66
writing spherical brain to ../surf/lh.qsphere.nofix
spherical transformation took 0.08 hours
mris_sphere utimesec    302.628046
mris_sphere stimesec    1.758959
mris_sphere ru_maxrss   199800
mris_sphere ru_ixrss    0
mris_sphere ru_idrss    0
mris_sphere ru_isrss    0
mris_sphere ru_minflt   1584940
mris_sphere ru_majflt   0
mris_sphere ru_nswap    0
mris_sphere ru_inblock  0
mris_sphere ru_oublock  10960
mris_sphere ru_msgsnd   0
mris_sphere ru_msgrcv   0
mris_sphere ru_nsignals 0
mris_sphere ru_nvcsw    168
mris_sphere ru_nivcsw   261
FSRUNTIME@ mris_sphere  0.0846 hours 1 threads
#--------------------------------------------
#@# QSphere rh Wed Jan  8 23:04:48 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_sphere -q -seed 1234 ../surf/rh.inflated.nofix ../surf/rh.qsphere.nofix

doing quick spherical unfolding.
setting seed for random number genererator to 1234
$Id: mris_sphere.c,v 1.61 2016/01/20 23:42:15 greve Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading original vertex positions...
unfolding cortex into spherical form...
surface projected - minimizing metric distortion...
vertex spacing 0.90 +- 0.57 (0.00-->6.12) (max @ vno 60622 --> 61881)
face area 0.02 +- 0.03 (-0.25-->0.51)

== Number of threads available to mris_sphere for OpenMP = 1 ==
scaling brain by 0.280...
inflating to sphere (rms error < 2.00)
000: dt: 0.0000, rms radial error=177.166, avgs=0
005/300: dt: 0.9000, rms radial error=176.907, avgs=0
010/300: dt: 0.9000, rms radial error=176.351, avgs=0
015/300: dt: 0.9000, rms radial error=175.619, avgs=0
020/300: dt: 0.9000, rms radial error=174.785, avgs=0
025/300: dt: 0.9000, rms radial error=173.891, avgs=0
030/300: dt: 0.9000, rms radial error=172.964, avgs=0
035/300: dt: 0.9000, rms radial error=172.020, avgs=0
040/300: dt: 0.9000, rms radial error=171.068, avgs=0
045/300: dt: 0.9000, rms radial error=170.115, avgs=0
050/300: dt: 0.9000, rms radial error=169.167, avgs=0
055/300: dt: 0.9000, rms radial error=168.222, avgs=0
060/300: dt: 0.9000, rms radial error=167.280, avgs=0
065/300: dt: 0.9000, rms radial error=166.342, avgs=0
070/300: dt: 0.9000, rms radial error=165.409, avgs=0
075/300: dt: 0.9000, rms radial error=164.480, avgs=0
080/300: dt: 0.9000, rms radial error=163.555, avgs=0
085/300: dt: 0.9000, rms radial error=162.635, avgs=0
090/300: dt: 0.9000, rms radial error=161.721, avgs=0
095/300: dt: 0.9000, rms radial error=160.811, avgs=0
100/300: dt: 0.9000, rms radial error=159.906, avgs=0
105/300: dt: 0.9000, rms radial error=159.007, avgs=0
110/300: dt: 0.9000, rms radial error=158.112, avgs=0
115/300: dt: 0.9000, rms radial error=157.222, avgs=0
120/300: dt: 0.9000, rms radial error=156.336, avgs=0
125/300: dt: 0.9000, rms radial error=155.456, avgs=0
130/300: dt: 0.9000, rms radial error=154.580, avgs=0
135/300: dt: 0.9000, rms radial error=153.710, avgs=0
140/300: dt: 0.9000, rms radial error=152.844, avgs=0
145/300: dt: 0.9000, rms radial error=151.984, avgs=0
150/300: dt: 0.9000, rms radial error=151.129, avgs=0
155/300: dt: 0.9000, rms radial error=150.279, avgs=0
160/300: dt: 0.9000, rms radial error=149.433, avgs=0
165/300: dt: 0.9000, rms radial error=148.592, avgs=0
170/300: dt: 0.9000, rms radial error=147.755, avgs=0
175/300: dt: 0.9000, rms radial error=146.923, avgs=0
180/300: dt: 0.9000, rms radial error=146.096, avgs=0
185/300: dt: 0.9000, rms radial error=145.273, avgs=0
190/300: dt: 0.9000, rms radial error=144.455, avgs=0
195/300: dt: 0.9000, rms radial error=143.641, avgs=0
200/300: dt: 0.9000, rms radial error=142.832, avgs=0
205/300: dt: 0.9000, rms radial error=142.028, avgs=0
210/300: dt: 0.9000, rms radial error=141.227, avgs=0
215/300: dt: 0.9000, rms radial error=140.432, avgs=0
220/300: dt: 0.9000, rms radial error=139.640, avgs=0
225/300: dt: 0.9000, rms radial error=138.853, avgs=0
230/300: dt: 0.9000, rms radial error=138.070, avgs=0
235/300: dt: 0.9000, rms radial error=137.292, avgs=0
240/300: dt: 0.9000, rms radial error=136.518, avgs=0
245/300: dt: 0.9000, rms radial error=135.748, avgs=0
250/300: dt: 0.9000, rms radial error=134.982, avgs=0
255/300: dt: 0.9000, rms radial error=134.221, avgs=0
260/300: dt: 0.9000, rms radial error=133.464, avgs=0
265/300: dt: 0.9000, rms radial error=132.711, avgs=0
270/300: dt: 0.9000, rms radial error=131.962, avgs=0
275/300: dt: 0.9000, rms radial error=131.217, avgs=0
280/300: dt: 0.9000, rms radial error=130.477, avgs=0
285/300: dt: 0.9000, rms radial error=129.741, avgs=0
290/300: dt: 0.9000, rms radial error=129.009, avgs=0
295/300: dt: 0.9000, rms radial error=128.281, avgs=0
300/300: dt: 0.9000, rms radial error=127.557, avgs=0

spherical inflation complete.
epoch 1 (K=10.0), pass 1, starting sse = 19331.41
taking momentum steps...
taking momentum steps...
taking momentum steps...
pass 1 complete, delta sse/iter = 0.00/10 = 0.00012
epoch 2 (K=40.0), pass 1, starting sse = 3491.99
taking momentum steps...
taking momentum steps...
taking momentum steps...
pass 1 complete, delta sse/iter = 0.00/10 = 0.00002
epoch 3 (K=160.0), pass 1, starting sse = 439.70
taking momentum steps...
taking momentum steps...
taking momentum steps...
pass 1 complete, delta sse/iter = 0.06/11 = 0.00582
epoch 4 (K=640.0), pass 1, starting sse = 42.03
taking momentum steps...
taking momentum steps...
taking momentum steps...
pass 1 complete, delta sse/iter = 0.11/14 = 0.00820
final distance error %28.42
writing spherical brain to ../surf/rh.qsphere.nofix
spherical transformation took 0.09 hours
mris_sphere utimesec    332.749652
mris_sphere stimesec    0.761012
mris_sphere ru_maxrss   204860
mris_sphere ru_ixrss    0
mris_sphere ru_idrss    0
mris_sphere ru_isrss    0
mris_sphere ru_minflt   507845
mris_sphere ru_majflt   0
mris_sphere ru_nswap    0
mris_sphere ru_inblock  0
mris_sphere ru_oublock  11240
mris_sphere ru_msgsnd   0
mris_sphere ru_msgrcv   0
mris_sphere ru_nsignals 0
mris_sphere ru_nvcsw    146
mris_sphere ru_nivcsw   100
FSRUNTIME@ mris_sphere  0.0926 hours 1 threads
#--------------------------------------------
#@# Fix Topology Copy lh Wed Jan  8 23:10:21 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 cp ../surf/lh.orig.nofix ../surf/lh.orig


 cp ../surf/lh.inflated.nofix ../surf/lh.inflated

#--------------------------------------------
#@# Fix Topology Copy rh Wed Jan  8 23:10:21 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 cp ../surf/rh.orig.nofix ../surf/rh.orig


 cp ../surf/rh.inflated.nofix ../surf/rh.inflated

#@# Fix Topology lh Wed Jan  8 23:10:21 CST 2020

 mris_fix_topology -rusage /study2/emowrap/data/freesurfer/subjects/066/touch/rusage.mris_fix_topology.lh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 066 lh

reading spherical homeomorphism from 'qsphere.nofix'
using genetic algorithm with optimized parameters
setting seed for random number genererator to 1234

*************************************************************
Topology Correction Parameters
retessellation mode:           genetic search
number of patches/generation : 10
number of generations :        10
surface mri loglikelihood coefficient :         1.0
volume mri loglikelihood coefficient :          10.0
normal dot loglikelihood coefficient :          1.0
quadratic curvature loglikelihood coefficient : 1.0
volume resolution :                             2
eliminate vertices during search :              1
initial patch selection :                       1
select all defect vertices :                    0
ordering dependant retessellation:              0
use precomputed edge table :                    0
smooth retessellated patch :                    2
match retessellated patch :                     1
verbose mode :                                  0

*************************************************************
INFO: assuming .mgz format
$Id: mris_fix_topology.c,v 1.50.2.1 2016/10/27 22:25:58 zkaufman Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
before topology correction, eno=-228 (nv=155604, nf=311664, ne=467496, g=115)
using quasi-homeomorphic spherical map to tessellate cortical surface...

Correction of the Topology
Finding true center and radius of Spherical Surface...done
Surface centered at (0,0,0) with radius 100.0 in 13 iterations
marking ambiguous vertices...
26087 ambiguous faces found in tessellation
segmenting defects...
120 defects found, arbitrating ambiguous regions...
analyzing neighboring defects...
      -merging segment 5 into 0
      -merging segment 30 into 26
      -merging segment 40 into 39
      -merging segment 69 into 68
      -merging segment 75 into 72
      -merging segment 82 into 80
      -merging segment 109 into 103
113 defects to be corrected
0 vertices coincident
reading input surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.qsphere.nofix...
reading brain volume from brain...
reading wm segmentation from wm...
Computing Initial Surface Statistics
      -face       loglikelihood: -9.5970  (-4.7985)
      -vertex     loglikelihood: -6.7816  (-3.3908)
      -normal dot loglikelihood: -3.5237  (-3.5237)
      -quad curv  loglikelihood: -6.1580  (-3.0790)
      Total Loglikelihood : -26.0602

CORRECTING DEFECT 0 (vertices=2505, convex hull=647, v0=16)
XL defect detected...
After retessellation of defect 0 (v0=16), euler #=-110 (141489,421551,279952) : difference with theory (-110) = 0

CORRECTING DEFECT 1 (vertices=283, convex hull=205, v0=739)
After retessellation of defect 1 (v0=739), euler #=-110 (141561,421870,280199) : difference with theory (-109) = 1

CORRECTING DEFECT 2 (vertices=6, convex hull=11, v0=808)
After retessellation of defect 2 (v0=808), euler #=-109 (141562,421876,280205) : difference with theory (-108) = 1

CORRECTING DEFECT 3 (vertices=746, convex hull=268, v0=5163)
After retessellation of defect 3 (v0=5163), euler #=-108 (141653,422292,280531) : difference with theory (-107) = 1

CORRECTING DEFECT 4 (vertices=23, convex hull=57, v0=5302)
After retessellation of defect 4 (v0=5302), euler #=-107 (141663,422341,280571) : difference with theory (-106) = 1

CORRECTING DEFECT 5 (vertices=43, convex hull=59, v0=6305)
After retessellation of defect 5 (v0=6305), euler #=-106 (141674,422402,280622) : difference with theory (-105) = 1

CORRECTING DEFECT 6 (vertices=12, convex hull=31, v0=8924)
After retessellation of defect 6 (v0=8924), euler #=-105 (141676,422418,280637) : difference with theory (-104) = 1

CORRECTING DEFECT 7 (vertices=59, convex hull=78, v0=14090)
After retessellation of defect 7 (v0=14090), euler #=-104 (141704,422535,280727) : difference with theory (-103) = 1

CORRECTING DEFECT 8 (vertices=168, convex hull=36, v0=17405)
After retessellation of defect 8 (v0=17405), euler #=-103 (141709,422560,280748) : difference with theory (-102) = 1

CORRECTING DEFECT 9 (vertices=44, convex hull=53, v0=20153)
After retessellation of defect 9 (v0=20153), euler #=-102 (141720,422613,280791) : difference with theory (-101) = 1

CORRECTING DEFECT 10 (vertices=33, convex hull=32, v0=25235)
After retessellation of defect 10 (v0=25235), euler #=-101 (141724,422633,280808) : difference with theory (-100) = 1

CORRECTING DEFECT 11 (vertices=34, convex hull=29, v0=25366)
After retessellation of defect 11 (v0=25366), euler #=-100 (141732,422667,280835) : difference with theory (-99) = 1

CORRECTING DEFECT 12 (vertices=59, convex hull=93, v0=28648)
After retessellation of defect 12 (v0=28648), euler #=-99 (141766,422810,280945) : difference with theory (-98) = 1

CORRECTING DEFECT 13 (vertices=7, convex hull=31, v0=29492)
After retessellation of defect 13 (v0=29492), euler #=-98 (141769,422827,280960) : difference with theory (-97) = 1

CORRECTING DEFECT 14 (vertices=76, convex hull=73, v0=30841)
After retessellation of defect 14 (v0=30841), euler #=-97 (141784,422909,281028) : difference with theory (-96) = 1

CORRECTING DEFECT 15 (vertices=119, convex hull=80, v0=32743)
After retessellation of defect 15 (v0=32743), euler #=-96 (141795,422972,281081) : difference with theory (-95) = 1

CORRECTING DEFECT 16 (vertices=41, convex hull=52, v0=33180)
After retessellation of defect 16 (v0=33180), euler #=-95 (141807,423027,281125) : difference with theory (-94) = 1

CORRECTING DEFECT 17 (vertices=29, convex hull=25, v0=38478)
After retessellation of defect 17 (v0=38478), euler #=-94 (141808,423036,281134) : difference with theory (-93) = 1

CORRECTING DEFECT 18 (vertices=23, convex hull=25, v0=41312)
After retessellation of defect 18 (v0=41312), euler #=-93 (141811,423052,281148) : difference with theory (-92) = 1

CORRECTING DEFECT 19 (vertices=119, convex hull=64, v0=45168)
After retessellation of defect 19 (v0=45168), euler #=-92 (141826,423123,281205) : difference with theory (-91) = 1

CORRECTING DEFECT 20 (vertices=12, convex hull=32, v0=52315)
After retessellation of defect 20 (v0=52315), euler #=-91 (141829,423142,281222) : difference with theory (-90) = 1

CORRECTING DEFECT 21 (vertices=133, convex hull=76, v0=55155)
After retessellation of defect 21 (v0=55155), euler #=-90 (141852,423242,281300) : difference with theory (-89) = 1

CORRECTING DEFECT 22 (vertices=6, convex hull=16, v0=56170)
After retessellation of defect 22 (v0=56170), euler #=-89 (141853,423250,281308) : difference with theory (-88) = 1

CORRECTING DEFECT 23 (vertices=25, convex hull=40, v0=56549)
After retessellation of defect 23 (v0=56549), euler #=-88 (141856,423273,281329) : difference with theory (-87) = 1

CORRECTING DEFECT 24 (vertices=57, convex hull=39, v0=56793)
After retessellation of defect 24 (v0=56793), euler #=-87 (141866,423316,281363) : difference with theory (-86) = 1

CORRECTING DEFECT 25 (vertices=90, convex hull=41, v0=57940)
After retessellation of defect 25 (v0=57940), euler #=-85 (141875,423360,281400) : difference with theory (-85) = 0

CORRECTING DEFECT 26 (vertices=22, convex hull=51, v0=58400)
After retessellation of defect 26 (v0=58400), euler #=-84 (141885,423406,281437) : difference with theory (-84) = 0

CORRECTING DEFECT 27 (vertices=125, convex hull=91, v0=58510)
After retessellation of defect 27 (v0=58510), euler #=-83 (141896,423477,281498) : difference with theory (-83) = 0

CORRECTING DEFECT 28 (vertices=14, convex hull=18, v0=58964)
After retessellation of defect 28 (v0=58964), euler #=-82 (141898,423490,281510) : difference with theory (-82) = 0

CORRECTING DEFECT 29 (vertices=20, convex hull=30, v0=60739)
After retessellation of defect 29 (v0=60739), euler #=-81 (141899,423503,281523) : difference with theory (-81) = 0

CORRECTING DEFECT 30 (vertices=64, convex hull=41, v0=64072)
After retessellation of defect 30 (v0=64072), euler #=-80 (141918,423575,281577) : difference with theory (-80) = 0

CORRECTING DEFECT 31 (vertices=22, convex hull=38, v0=65109)
After retessellation of defect 31 (v0=65109), euler #=-79 (141922,423599,281598) : difference with theory (-79) = 0

CORRECTING DEFECT 32 (vertices=112, convex hull=73, v0=65893)
After retessellation of defect 32 (v0=65893), euler #=-78 (141940,423682,281664) : difference with theory (-78) = 0

CORRECTING DEFECT 33 (vertices=33, convex hull=55, v0=67176)
After retessellation of defect 33 (v0=67176), euler #=-77 (141961,423769,281731) : difference with theory (-77) = 0

CORRECTING DEFECT 34 (vertices=70, convex hull=47, v0=69549)
After retessellation of defect 34 (v0=69549), euler #=-76 (141973,423824,281775) : difference with theory (-76) = 0

CORRECTING DEFECT 35 (vertices=56, convex hull=33, v0=69830)
After retessellation of defect 35 (v0=69830), euler #=-75 (141977,423848,281796) : difference with theory (-75) = 0

CORRECTING DEFECT 36 (vertices=11, convex hull=22, v0=70291)
After retessellation of defect 36 (v0=70291), euler #=-74 (141983,423871,281814) : difference with theory (-74) = 0

CORRECTING DEFECT 37 (vertices=78, convex hull=109, v0=71845)
After retessellation of defect 37 (v0=71845), euler #=-72 (142024,424042,281946) : difference with theory (-73) = -1

CORRECTING DEFECT 38 (vertices=19, convex hull=17, v0=74494)
After retessellation of defect 38 (v0=74494), euler #=-71 (142024,424045,281950) : difference with theory (-72) = -1

CORRECTING DEFECT 39 (vertices=7, convex hull=29, v0=79005)
After retessellation of defect 39 (v0=79005), euler #=-70 (142025,424057,281962) : difference with theory (-71) = -1

CORRECTING DEFECT 40 (vertices=25, convex hull=60, v0=79135)
After retessellation of defect 40 (v0=79135), euler #=-69 (142037,424117,282011) : difference with theory (-70) = -1

CORRECTING DEFECT 41 (vertices=11, convex hull=24, v0=79413)
After retessellation of defect 41 (v0=79413), euler #=-68 (142040,424131,282023) : difference with theory (-69) = -1

CORRECTING DEFECT 42 (vertices=25, convex hull=62, v0=81449)
After retessellation of defect 42 (v0=81449), euler #=-67 (142050,424183,282066) : difference with theory (-68) = -1

CORRECTING DEFECT 43 (vertices=24, convex hull=52, v0=83466)
After retessellation of defect 43 (v0=83466), euler #=-66 (142062,424237,282109) : difference with theory (-67) = -1

CORRECTING DEFECT 44 (vertices=7, convex hull=35, v0=84006)
After retessellation of defect 44 (v0=84006), euler #=-65 (142066,424258,282127) : difference with theory (-66) = -1

CORRECTING DEFECT 45 (vertices=18, convex hull=53, v0=85507)
After retessellation of defect 45 (v0=85507), euler #=-64 (142080,424318,282174) : difference with theory (-65) = -1

CORRECTING DEFECT 46 (vertices=534, convex hull=291, v0=86411)
After retessellation of defect 46 (v0=86411), euler #=-63 (142168,424725,282494) : difference with theory (-64) = -1

CORRECTING DEFECT 47 (vertices=31, convex hull=80, v0=86859)
After retessellation of defect 47 (v0=86859), euler #=-62 (142187,424814,282565) : difference with theory (-63) = -1

CORRECTING DEFECT 48 (vertices=50, convex hull=51, v0=88477)
After retessellation of defect 48 (v0=88477), euler #=-61 (142201,424875,282613) : difference with theory (-62) = -1

CORRECTING DEFECT 49 (vertices=24, convex hull=25, v0=88742)
After retessellation of defect 49 (v0=88742), euler #=-60 (142204,424890,282626) : difference with theory (-61) = -1

CORRECTING DEFECT 50 (vertices=26, convex hull=71, v0=91155)
After retessellation of defect 50 (v0=91155), euler #=-59 (142216,424954,282679) : difference with theory (-60) = -1

CORRECTING DEFECT 51 (vertices=62, convex hull=93, v0=92586)
After retessellation of defect 51 (v0=92586), euler #=-58 (142233,425045,282754) : difference with theory (-59) = -1

CORRECTING DEFECT 52 (vertices=80, convex hull=99, v0=94361)
After retessellation of defect 52 (v0=94361), euler #=-59 (142242,425134,282833) : difference with theory (-58) = 1

CORRECTING DEFECT 53 (vertices=10, convex hull=17, v0=94526)
After retessellation of defect 53 (v0=94526), euler #=-58 (142243,425143,282842) : difference with theory (-57) = 1

CORRECTING DEFECT 54 (vertices=23, convex hull=37, v0=95008)
After retessellation of defect 54 (v0=95008), euler #=-57 (142252,425182,282873) : difference with theory (-56) = 1

CORRECTING DEFECT 55 (vertices=6, convex hull=17, v0=96594)
After retessellation of defect 55 (v0=96594), euler #=-56 (142253,425188,282879) : difference with theory (-55) = 1

CORRECTING DEFECT 56 (vertices=4988, convex hull=484, v0=97088)
XL defect detected...
After retessellation of defect 56 (v0=97088), euler #=-55 (144160,431159,286944) : difference with theory (-54) = 1

CORRECTING DEFECT 57 (vertices=49, convex hull=27, v0=97414)
After retessellation of defect 57 (v0=97414), euler #=-54 (144164,431176,286958) : difference with theory (-53) = 1

CORRECTING DEFECT 58 (vertices=21, convex hull=19, v0=98853)
After retessellation of defect 58 (v0=98853), euler #=-53 (144164,431180,286963) : difference with theory (-52) = 1

CORRECTING DEFECT 59 (vertices=41, convex hull=65, v0=99102)
After retessellation of defect 59 (v0=99102), euler #=-52 (144175,431242,287015) : difference with theory (-51) = 1

CORRECTING DEFECT 60 (vertices=15, convex hull=28, v0=99710)
After retessellation of defect 60 (v0=99710), euler #=-51 (144178,431258,287029) : difference with theory (-50) = 1

CORRECTING DEFECT 61 (vertices=49, convex hull=31, v0=102262)
After retessellation of defect 61 (v0=102262), euler #=-50 (144183,431283,287050) : difference with theory (-49) = 1

CORRECTING DEFECT 62 (vertices=138, convex hull=92, v0=103372)
After retessellation of defect 62 (v0=103372), euler #=-50 (144219,431427,287158) : difference with theory (-48) = 2

CORRECTING DEFECT 63 (vertices=26, convex hull=34, v0=103996)
After retessellation of defect 63 (v0=103996), euler #=-49 (144226,431460,287185) : difference with theory (-47) = 2

CORRECTING DEFECT 64 (vertices=33, convex hull=33, v0=105777)
After retessellation of defect 64 (v0=105777), euler #=-48 (144231,431484,287205) : difference with theory (-46) = 2

CORRECTING DEFECT 65 (vertices=676, convex hull=364, v0=106251)
After retessellation of defect 65 (v0=106251), euler #=-47 (144340,432009,287622) : difference with theory (-45) = 2

CORRECTING DEFECT 66 (vertices=13, convex hull=38, v0=107592)
After retessellation of defect 66 (v0=107592), euler #=-46 (144342,432028,287640) : difference with theory (-44) = 2

CORRECTING DEFECT 67 (vertices=19, convex hull=39, v0=107901)
After retessellation of defect 67 (v0=107901), euler #=-45 (144352,432073,287676) : difference with theory (-43) = 2

CORRECTING DEFECT 68 (vertices=39, convex hull=68, v0=108480)
After retessellation of defect 68 (v0=108480), euler #=-43 (144360,432128,287725) : difference with theory (-42) = 1

CORRECTING DEFECT 69 (vertices=26, convex hull=29, v0=108682)
After retessellation of defect 69 (v0=108682), euler #=-42 (144366,432157,287749) : difference with theory (-41) = 1

CORRECTING DEFECT 70 (vertices=8, convex hull=14, v0=109471)
After retessellation of defect 70 (v0=109471), euler #=-41 (144367,432165,287757) : difference with theory (-40) = 1

CORRECTING DEFECT 71 (vertices=24, convex hull=28, v0=110002)
After retessellation of defect 71 (v0=110002), euler #=-40 (144370,432183,287773) : difference with theory (-39) = 1

CORRECTING DEFECT 72 (vertices=38, convex hull=40, v0=110108)
After retessellation of defect 72 (v0=110108), euler #=-39 (144388,432253,287826) : difference with theory (-38) = 1

CORRECTING DEFECT 73 (vertices=38, convex hull=76, v0=111265)
After retessellation of defect 73 (v0=111265), euler #=-38 (144414,432362,287910) : difference with theory (-37) = 1

CORRECTING DEFECT 74 (vertices=9, convex hull=22, v0=111727)
After retessellation of defect 74 (v0=111727), euler #=-37 (144415,432370,287918) : difference with theory (-36) = 1

CORRECTING DEFECT 75 (vertices=63, convex hull=68, v0=111977)
After retessellation of defect 75 (v0=111977), euler #=-35 (144426,432431,287970) : difference with theory (-35) = 0

CORRECTING DEFECT 76 (vertices=212, convex hull=110, v0=114549)
After retessellation of defect 76 (v0=114549), euler #=-34 (144493,432683,288156) : difference with theory (-34) = 0

CORRECTING DEFECT 77 (vertices=21, convex hull=25, v0=116123)
After retessellation of defect 77 (v0=116123), euler #=-33 (144495,432697,288169) : difference with theory (-33) = 0

CORRECTING DEFECT 78 (vertices=26, convex hull=54, v0=117255)
After retessellation of defect 78 (v0=117255), euler #=-32 (144510,432765,288223) : difference with theory (-32) = 0

CORRECTING DEFECT 79 (vertices=9, convex hull=31, v0=119496)
After retessellation of defect 79 (v0=119496), euler #=-31 (144512,432782,288239) : difference with theory (-31) = 0

CORRECTING DEFECT 80 (vertices=127, convex hull=81, v0=119517)
After retessellation of defect 80 (v0=119517), euler #=-30 (144534,432878,288314) : difference with theory (-30) = 0

CORRECTING DEFECT 81 (vertices=60, convex hull=77, v0=119859)
After retessellation of defect 81 (v0=119859), euler #=-29 (144563,432999,288407) : difference with theory (-29) = 0

CORRECTING DEFECT 82 (vertices=63, convex hull=52, v0=120588)
After retessellation of defect 82 (v0=120588), euler #=-28 (144581,433072,288463) : difference with theory (-28) = 0

CORRECTING DEFECT 83 (vertices=11, convex hull=14, v0=122611)
After retessellation of defect 83 (v0=122611), euler #=-27 (144583,433080,288470) : difference with theory (-27) = 0

CORRECTING DEFECT 84 (vertices=98, convex hull=59, v0=123272)
After retessellation of defect 84 (v0=123272), euler #=-27 (144606,433181,288548) : difference with theory (-26) = 1

CORRECTING DEFECT 85 (vertices=22, convex hull=59, v0=124124)
After retessellation of defect 85 (v0=124124), euler #=-26 (144618,433238,288594) : difference with theory (-25) = 1

CORRECTING DEFECT 86 (vertices=33, convex hull=55, v0=126233)
After retessellation of defect 86 (v0=126233), euler #=-25 (144633,433304,288646) : difference with theory (-24) = 1

CORRECTING DEFECT 87 (vertices=37, convex hull=31, v0=126243)
After retessellation of defect 87 (v0=126243), euler #=-24 (144641,433336,288671) : difference with theory (-23) = 1

CORRECTING DEFECT 88 (vertices=6, convex hull=21, v0=126288)
After retessellation of defect 88 (v0=126288), euler #=-23 (144642,433345,288680) : difference with theory (-22) = 1

CORRECTING DEFECT 89 (vertices=84, convex hull=122, v0=126880)
After retessellation of defect 89 (v0=126880), euler #=-22 (144660,433453,288771) : difference with theory (-21) = 1

CORRECTING DEFECT 90 (vertices=42, convex hull=26, v0=127364)
After retessellation of defect 90 (v0=127364), euler #=-21 (144661,433463,288781) : difference with theory (-20) = 1

CORRECTING DEFECT 91 (vertices=6, convex hull=31, v0=128052)
After retessellation of defect 91 (v0=128052), euler #=-20 (144662,433475,288793) : difference with theory (-19) = 1

CORRECTING DEFECT 92 (vertices=60, convex hull=35, v0=128985)
After retessellation of defect 92 (v0=128985), euler #=-19 (144676,433531,288836) : difference with theory (-18) = 1

CORRECTING DEFECT 93 (vertices=44, convex hull=33, v0=130702)
After retessellation of defect 93 (v0=130702), euler #=-18 (144683,433564,288863) : difference with theory (-17) = 1

CORRECTING DEFECT 94 (vertices=90, convex hull=61, v0=131556)
After retessellation of defect 94 (v0=131556), euler #=-17 (144701,433642,288924) : difference with theory (-16) = 1

CORRECTING DEFECT 95 (vertices=24, convex hull=48, v0=135060)
After retessellation of defect 95 (v0=135060), euler #=-16 (144710,433689,288963) : difference with theory (-15) = 1

CORRECTING DEFECT 96 (vertices=18, convex hull=31, v0=138914)
After retessellation of defect 96 (v0=138914), euler #=-15 (144711,433705,288979) : difference with theory (-14) = 1

CORRECTING DEFECT 97 (vertices=108, convex hull=64, v0=139097)
After retessellation of defect 97 (v0=139097), euler #=-13 (144720,433765,289032) : difference with theory (-13) = 0

CORRECTING DEFECT 98 (vertices=78, convex hull=64, v0=139833)
After retessellation of defect 98 (v0=139833), euler #=-12 (144732,433832,289088) : difference with theory (-12) = 0

CORRECTING DEFECT 99 (vertices=37, convex hull=84, v0=140012)
After retessellation of defect 99 (v0=140012), euler #=-11 (144742,433900,289147) : difference with theory (-11) = 0

CORRECTING DEFECT 100 (vertices=91, convex hull=116, v0=143103)
After retessellation of defect 100 (v0=143103), euler #=-10 (144762,434013,289241) : difference with theory (-10) = 0

CORRECTING DEFECT 101 (vertices=12, convex hull=27, v0=144406)
After retessellation of defect 101 (v0=144406), euler #=-9 (144763,434024,289252) : difference with theory (-9) = 0

CORRECTING DEFECT 102 (vertices=18, convex hull=20, v0=145039)
After retessellation of defect 102 (v0=145039), euler #=-8 (144763,434029,289258) : difference with theory (-8) = 0

CORRECTING DEFECT 103 (vertices=36, convex hull=70, v0=146781)
After retessellation of defect 103 (v0=146781), euler #=-7 (144784,434119,289328) : difference with theory (-7) = 0

CORRECTING DEFECT 104 (vertices=39, convex hull=71, v0=148019)
After retessellation of defect 104 (v0=148019), euler #=-6 (144799,434194,289389) : difference with theory (-6) = 0

CORRECTING DEFECT 105 (vertices=44, convex hull=71, v0=149099)
After retessellation of defect 105 (v0=149099), euler #=-5 (144827,434307,289475) : difference with theory (-5) = 0

CORRECTING DEFECT 106 (vertices=26, convex hull=70, v0=151812)
After retessellation of defect 106 (v0=151812), euler #=-4 (144837,434367,289526) : difference with theory (-4) = 0

CORRECTING DEFECT 107 (vertices=144, convex hull=80, v0=152519)
After retessellation of defect 107 (v0=152519), euler #=-3 (144853,434450,289594) : difference with theory (-3) = 0

CORRECTING DEFECT 108 (vertices=45, convex hull=87, v0=152950)
After retessellation of defect 108 (v0=152950), euler #=-2 (144880,434567,289685) : difference with theory (-2) = 0

CORRECTING DEFECT 109 (vertices=43, convex hull=74, v0=153695)
After retessellation of defect 109 (v0=153695), euler #=-1 (144903,434663,289759) : difference with theory (-1) = 0

CORRECTING DEFECT 110 (vertices=69, convex hull=47, v0=154183)
After retessellation of defect 110 (v0=154183), euler #=0 (144910,434701,289791) : difference with theory (0) = 0

CORRECTING DEFECT 111 (vertices=26, convex hull=57, v0=154227)
After retessellation of defect 111 (v0=154227), euler #=1 (144924,434762,289839) : difference with theory (1) = 0

CORRECTING DEFECT 112 (vertices=19, convex hull=19, v0=155536)
After retessellation of defect 112 (v0=155536), euler #=2 (144925,434769,289846) : difference with theory (2) = 0
computing original vertex metric properties...
storing new metric properties...
computing tessellation statistics...
vertex spacing 0.90 +- 0.33 (0.02-->13.45) (max @ vno 91213 --> 147477)
face area 0.00 +- 0.00 (0.00-->0.00)
performing soap bubble on retessellated vertices for 0 iterations...
vertex spacing 0.90 +- 0.33 (0.02-->13.45) (max @ vno 91213 --> 147477)
face area 0.00 +- 0.00 (0.00-->0.00)
tessellation finished, orienting corrected surface...
424 mutations (37.6%), 704 crossovers (62.4%), 536 vertices were eliminated
building final representation...
10679 vertices and 0 faces have been removed from triangulation
after topology correction, eno=2 (nv=144925, nf=289846, ne=434769, g=0)
writing corrected surface to /study2/emowrap/data/freesurfer/subjects/066/surf/lh.orig...

0.000 % of the vertices (0 vertices) exhibit an orientation change
topology fixing took 173.0 minutes
0 defective edges
removing intersecting faces
000: 1519 intersecting
001: 111 intersecting
002: 32 intersecting
003: 5 intersecting
mris_fix_topology utimesec    10320.105881
mris_fix_topology stimesec    56.888426
mris_fix_topology ru_maxrss   589040
mris_fix_topology ru_ixrss    0
mris_fix_topology ru_idrss    0
mris_fix_topology ru_isrss    0
mris_fix_topology ru_minflt   30398565
mris_fix_topology ru_majflt   0
mris_fix_topology ru_nswap    0
mris_fix_topology ru_inblock  0
mris_fix_topology ru_oublock  13840
mris_fix_topology ru_msgsnd   0
mris_fix_topology ru_msgrcv   0
mris_fix_topology ru_nsignals 0
mris_fix_topology ru_nvcsw    203
mris_fix_topology ru_nivcsw   11323
FSRUNTIME@ mris_fix_topology lh  2.8825 hours 1 threads
#@# Fix Topology rh Thu Jan  9 02:03:19 CST 2020

 mris_fix_topology -rusage /study2/emowrap/data/freesurfer/subjects/066/touch/rusage.mris_fix_topology.rh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 066 rh

reading spherical homeomorphism from 'qsphere.nofix'
using genetic algorithm with optimized parameters
setting seed for random number genererator to 1234

*************************************************************
Topology Correction Parameters
retessellation mode:           genetic search
number of patches/generation : 10
number of generations :        10
surface mri loglikelihood coefficient :         1.0
volume mri loglikelihood coefficient :          10.0
normal dot loglikelihood coefficient :          1.0
quadratic curvature loglikelihood coefficient : 1.0
volume resolution :                             2
eliminate vertices during search :              1
initial patch selection :                       1
select all defect vertices :                    0
ordering dependant retessellation:              0
use precomputed edge table :                    0
smooth retessellated patch :                    2
match retessellated patch :                     1
verbose mode :                                  0

*************************************************************
INFO: assuming .mgz format
$Id: mris_fix_topology.c,v 1.50.2.1 2016/10/27 22:25:58 zkaufman Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
before topology correction, eno=-224 (nv=159558, nf=319564, ne=479346, g=113)
using quasi-homeomorphic spherical map to tessellate cortical surface...

Correction of the Topology
Finding true center and radius of Spherical Surface...done
Surface centered at (0,0,0) with radius 100.0 in 9 iterations
marking ambiguous vertices...
15350 ambiguous faces found in tessellation
segmenting defects...
121 defects found, arbitrating ambiguous regions...
analyzing neighboring defects...
      -merging segment 3 into 0
      -merging segment 70 into 67
      -merging segment 101 into 95
      -merging segment 99 into 98
117 defects to be corrected
0 vertices coincident
reading input surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.qsphere.nofix...
reading brain volume from brain...
reading wm segmentation from wm...
Computing Initial Surface Statistics
      -face       loglikelihood: -9.7053  (-4.8527)
      -vertex     loglikelihood: -6.7763  (-3.3881)
      -normal dot loglikelihood: -3.6198  (-3.6198)
      -quad curv  loglikelihood: -6.2747  (-3.1373)
      Total Loglikelihood : -26.3762

CORRECTING DEFECT 0 (vertices=1354, convex hull=415, v0=7)
L defect detected...
After retessellation of defect 0 (v0=7), euler #=-111 (150532,448562,297919) : difference with theory (-114) = -3

CORRECTING DEFECT 1 (vertices=31, convex hull=64, v0=77)
After retessellation of defect 1 (v0=77), euler #=-110 (150545,448624,297969) : difference with theory (-113) = -3

CORRECTING DEFECT 2 (vertices=118, convex hull=79, v0=171)
After retessellation of defect 2 (v0=171), euler #=-109 (150560,448701,298032) : difference with theory (-112) = -3

CORRECTING DEFECT 3 (vertices=320, convex hull=119, v0=556)
After retessellation of defect 3 (v0=556), euler #=-108 (150593,448852,298151) : difference with theory (-111) = -3

CORRECTING DEFECT 4 (vertices=9, convex hull=27, v0=1003)
After retessellation of defect 4 (v0=1003), euler #=-107 (150593,448860,298160) : difference with theory (-110) = -3

CORRECTING DEFECT 5 (vertices=36, convex hull=54, v0=2627)
After retessellation of defect 5 (v0=2627), euler #=-106 (150606,448918,298206) : difference with theory (-109) = -3

CORRECTING DEFECT 6 (vertices=334, convex hull=148, v0=3083)
After retessellation of defect 6 (v0=3083), euler #=-105 (150658,449144,298381) : difference with theory (-108) = -3

CORRECTING DEFECT 7 (vertices=13, convex hull=25, v0=3813)
After retessellation of defect 7 (v0=3813), euler #=-104 (150660,449162,298398) : difference with theory (-107) = -3

CORRECTING DEFECT 8 (vertices=5, convex hull=18, v0=6527)
After retessellation of defect 8 (v0=6527), euler #=-103 (150660,449167,298404) : difference with theory (-106) = -3

CORRECTING DEFECT 9 (vertices=6, convex hull=23, v0=6650)
After retessellation of defect 9 (v0=6650), euler #=-102 (150662,449179,298415) : difference with theory (-105) = -3

CORRECTING DEFECT 10 (vertices=17, convex hull=22, v0=9245)
After retessellation of defect 10 (v0=9245), euler #=-101 (150664,449189,298424) : difference with theory (-104) = -3

CORRECTING DEFECT 11 (vertices=21, convex hull=54, v0=12630)
After retessellation of defect 11 (v0=12630), euler #=-100 (150672,449232,298460) : difference with theory (-103) = -3

CORRECTING DEFECT 12 (vertices=18, convex hull=72, v0=13489)
After retessellation of defect 12 (v0=13489), euler #=-99 (150683,449290,298508) : difference with theory (-102) = -3

CORRECTING DEFECT 13 (vertices=48, convex hull=70, v0=18193)
After retessellation of defect 13 (v0=18193), euler #=-98 (150715,449412,298599) : difference with theory (-101) = -3

CORRECTING DEFECT 14 (vertices=56, convex hull=92, v0=18659)
After retessellation of defect 14 (v0=18659), euler #=-97 (150744,449541,298700) : difference with theory (-100) = -3

CORRECTING DEFECT 15 (vertices=16, convex hull=23, v0=19843)
After retessellation of defect 15 (v0=19843), euler #=-96 (150747,449557,298714) : difference with theory (-99) = -3

CORRECTING DEFECT 16 (vertices=15, convex hull=25, v0=31101)
After retessellation of defect 16 (v0=31101), euler #=-95 (150750,449572,298727) : difference with theory (-98) = -3

CORRECTING DEFECT 17 (vertices=12, convex hull=21, v0=33170)
After retessellation of defect 17 (v0=33170), euler #=-94 (150751,449584,298739) : difference with theory (-97) = -3

CORRECTING DEFECT 18 (vertices=5, convex hull=28, v0=33631)
After retessellation of defect 18 (v0=33631), euler #=-93 (150752,449593,298748) : difference with theory (-96) = -3

CORRECTING DEFECT 19 (vertices=33, convex hull=36, v0=35451)
After retessellation of defect 19 (v0=35451), euler #=-92 (150756,449619,298771) : difference with theory (-95) = -3

CORRECTING DEFECT 20 (vertices=89, convex hull=87, v0=37937)
After retessellation of defect 20 (v0=37937), euler #=-91 (150789,449755,298875) : difference with theory (-94) = -3

CORRECTING DEFECT 21 (vertices=32, convex hull=23, v0=40509)
After retessellation of defect 21 (v0=40509), euler #=-90 (150790,449764,298884) : difference with theory (-93) = -3

CORRECTING DEFECT 22 (vertices=46, convex hull=41, v0=47018)
After retessellation of defect 22 (v0=47018), euler #=-89 (150798,449804,298917) : difference with theory (-92) = -3

CORRECTING DEFECT 23 (vertices=95, convex hull=93, v0=47732)
After retessellation of defect 23 (v0=47732), euler #=-88 (150812,449884,298984) : difference with theory (-91) = -3

CORRECTING DEFECT 24 (vertices=37, convex hull=77, v0=48076)
After retessellation of defect 24 (v0=48076), euler #=-87 (150829,449965,299049) : difference with theory (-90) = -3

CORRECTING DEFECT 25 (vertices=485, convex hull=184, v0=50081)
After retessellation of defect 25 (v0=50081), euler #=-86 (150865,450158,299207) : difference with theory (-89) = -3

CORRECTING DEFECT 26 (vertices=56, convex hull=25, v0=50883)
After retessellation of defect 26 (v0=50883), euler #=-85 (150874,450195,299236) : difference with theory (-88) = -3

CORRECTING DEFECT 27 (vertices=24, convex hull=72, v0=53851)
After retessellation of defect 27 (v0=53851), euler #=-84 (150883,450250,299283) : difference with theory (-87) = -3

CORRECTING DEFECT 28 (vertices=61, convex hull=68, v0=57085)
After retessellation of defect 28 (v0=57085), euler #=-83 (150908,450353,299362) : difference with theory (-86) = -3

CORRECTING DEFECT 29 (vertices=18, convex hull=52, v0=57477)
After retessellation of defect 29 (v0=57477), euler #=-82 (150918,450403,299403) : difference with theory (-85) = -3

CORRECTING DEFECT 30 (vertices=32, convex hull=30, v0=59190)
After retessellation of defect 30 (v0=59190), euler #=-81 (150924,450430,299425) : difference with theory (-84) = -3

CORRECTING DEFECT 31 (vertices=182, convex hull=169, v0=59310)
After retessellation of defect 31 (v0=59310), euler #=-80 (150954,450598,299564) : difference with theory (-83) = -3

CORRECTING DEFECT 32 (vertices=46, convex hull=23, v0=61949)
After retessellation of defect 32 (v0=61949), euler #=-79 (150957,450612,299576) : difference with theory (-82) = -3

CORRECTING DEFECT 33 (vertices=7, convex hull=25, v0=63110)
After retessellation of defect 33 (v0=63110), euler #=-78 (150960,450626,299588) : difference with theory (-81) = -3

CORRECTING DEFECT 34 (vertices=24, convex hull=41, v0=65975)
After retessellation of defect 34 (v0=65975), euler #=-77 (150969,450668,299622) : difference with theory (-80) = -3

CORRECTING DEFECT 35 (vertices=18, convex hull=29, v0=67739)
After retessellation of defect 35 (v0=67739), euler #=-76 (150972,450684,299636) : difference with theory (-79) = -3

CORRECTING DEFECT 36 (vertices=9, convex hull=27, v0=68970)
After retessellation of defect 36 (v0=68970), euler #=-75 (150974,450697,299648) : difference with theory (-78) = -3

CORRECTING DEFECT 37 (vertices=240, convex hull=158, v0=70038)
After retessellation of defect 37 (v0=70038), euler #=-74 (151011,450883,299798) : difference with theory (-77) = -3

CORRECTING DEFECT 38 (vertices=98, convex hull=103, v0=70158)
After retessellation of defect 38 (v0=70158), euler #=-73 (151021,450956,299862) : difference with theory (-76) = -3

CORRECTING DEFECT 39 (vertices=28, convex hull=47, v0=71322)
After retessellation of defect 39 (v0=71322), euler #=-72 (151030,450999,299897) : difference with theory (-75) = -3

CORRECTING DEFECT 40 (vertices=510, convex hull=309, v0=72415)
After retessellation of defect 40 (v0=72415), euler #=-71 (151139,451482,300272) : difference with theory (-74) = -3

CORRECTING DEFECT 41 (vertices=102, convex hull=152, v0=73534)
After retessellation of defect 41 (v0=73534), euler #=-70 (151199,451731,300462) : difference with theory (-73) = -3

CORRECTING DEFECT 42 (vertices=27, convex hull=48, v0=75893)
After retessellation of defect 42 (v0=75893), euler #=-69 (151208,451776,300499) : difference with theory (-72) = -3

CORRECTING DEFECT 43 (vertices=5, convex hull=13, v0=75944)
After retessellation of defect 43 (v0=75944), euler #=-68 (151209,451782,300505) : difference with theory (-71) = -3

CORRECTING DEFECT 44 (vertices=35, convex hull=27, v0=76488)
After retessellation of defect 44 (v0=76488), euler #=-67 (151211,451801,300523) : difference with theory (-70) = -3

CORRECTING DEFECT 45 (vertices=6, convex hull=13, v0=78805)
After retessellation of defect 45 (v0=78805), euler #=-66 (151212,451808,300530) : difference with theory (-69) = -3

CORRECTING DEFECT 46 (vertices=56, convex hull=49, v0=79648)
After retessellation of defect 46 (v0=79648), euler #=-65 (151241,451913,300607) : difference with theory (-68) = -3

CORRECTING DEFECT 47 (vertices=26, convex hull=20, v0=79969)
After retessellation of defect 47 (v0=79969), euler #=-64 (151243,451923,300616) : difference with theory (-67) = -3

CORRECTING DEFECT 48 (vertices=29, convex hull=28, v0=81473)
After retessellation of defect 48 (v0=81473), euler #=-63 (151248,451944,300633) : difference with theory (-66) = -3

CORRECTING DEFECT 49 (vertices=26, convex hull=15, v0=84226)
After retessellation of defect 49 (v0=84226), euler #=-62 (151249,451950,300639) : difference with theory (-65) = -3

CORRECTING DEFECT 50 (vertices=168, convex hull=52, v0=84914)
After retessellation of defect 50 (v0=84914), euler #=-61 (151259,451997,300677) : difference with theory (-64) = -3

CORRECTING DEFECT 51 (vertices=7, convex hull=31, v0=92510)
After retessellation of defect 51 (v0=92510), euler #=-60 (151261,452013,300692) : difference with theory (-63) = -3

CORRECTING DEFECT 52 (vertices=23, convex hull=24, v0=92592)
After retessellation of defect 52 (v0=92592), euler #=-59 (151264,452032,300709) : difference with theory (-62) = -3

CORRECTING DEFECT 53 (vertices=139, convex hull=141, v0=93283)
After retessellation of defect 53 (v0=93283), euler #=-58 (151273,452128,300797) : difference with theory (-61) = -3

CORRECTING DEFECT 54 (vertices=189, convex hull=48, v0=96779)
After retessellation of defect 54 (v0=96779), euler #=-57 (151288,452190,300845) : difference with theory (-60) = -3

CORRECTING DEFECT 55 (vertices=123, convex hull=105, v0=97186)
After retessellation of defect 55 (v0=97186), euler #=-56 (151299,452271,300916) : difference with theory (-59) = -3

CORRECTING DEFECT 56 (vertices=46, convex hull=64, v0=98812)
After retessellation of defect 56 (v0=98812), euler #=-55 (151315,452345,300975) : difference with theory (-58) = -3

CORRECTING DEFECT 57 (vertices=42, convex hull=84, v0=100599)
After retessellation of defect 57 (v0=100599), euler #=-54 (151343,452468,301071) : difference with theory (-57) = -3

CORRECTING DEFECT 58 (vertices=68, convex hull=77, v0=100671)
After retessellation of defect 58 (v0=100671), euler #=-53 (151364,452564,301147) : difference with theory (-56) = -3

CORRECTING DEFECT 59 (vertices=20, convex hull=20, v0=102070)
After retessellation of defect 59 (v0=102070), euler #=-52 (151368,452580,301160) : difference with theory (-55) = -3

CORRECTING DEFECT 60 (vertices=18, convex hull=23, v0=102488)
After retessellation of defect 60 (v0=102488), euler #=-51 (151371,452596,301174) : difference with theory (-54) = -3

CORRECTING DEFECT 61 (vertices=19, convex hull=29, v0=103182)
After retessellation of defect 61 (v0=103182), euler #=-50 (151374,452616,301192) : difference with theory (-53) = -3

CORRECTING DEFECT 62 (vertices=42, convex hull=37, v0=106248)
After retessellation of defect 62 (v0=106248), euler #=-49 (151390,452677,301238) : difference with theory (-52) = -3

CORRECTING DEFECT 63 (vertices=175, convex hull=129, v0=106325)
After retessellation of defect 63 (v0=106325), euler #=-49 (151452,452928,301427) : difference with theory (-51) = -2

CORRECTING DEFECT 64 (vertices=59, convex hull=72, v0=107001)
After retessellation of defect 64 (v0=107001), euler #=-48 (151480,453043,301515) : difference with theory (-50) = -2

CORRECTING DEFECT 65 (vertices=27, convex hull=25, v0=107367)
After retessellation of defect 65 (v0=107367), euler #=-47 (151484,453062,301531) : difference with theory (-49) = -2

CORRECTING DEFECT 66 (vertices=206, convex hull=112, v0=107835)
After retessellation of defect 66 (v0=107835), euler #=-46 (151522,453235,301667) : difference with theory (-48) = -2

CORRECTING DEFECT 67 (vertices=10, convex hull=24, v0=108343)
After retessellation of defect 67 (v0=108343), euler #=-45 (151525,453251,301681) : difference with theory (-47) = -2

CORRECTING DEFECT 68 (vertices=154, convex hull=132, v0=109248)
After retessellation of defect 68 (v0=109248), euler #=-44 (151533,453330,301753) : difference with theory (-46) = -2

CORRECTING DEFECT 69 (vertices=26, convex hull=51, v0=112296)
After retessellation of defect 69 (v0=112296), euler #=-43 (151548,453393,301802) : difference with theory (-45) = -2

CORRECTING DEFECT 70 (vertices=29, convex hull=51, v0=114574)
After retessellation of defect 70 (v0=114574), euler #=-42 (151563,453458,301853) : difference with theory (-44) = -2

CORRECTING DEFECT 71 (vertices=124, convex hull=120, v0=115208)
After retessellation of defect 71 (v0=115208), euler #=-41 (151576,453548,301931) : difference with theory (-43) = -2

CORRECTING DEFECT 72 (vertices=175, convex hull=158, v0=116116)
After retessellation of defect 72 (v0=116116), euler #=-40 (151657,453862,302165) : difference with theory (-42) = -2

CORRECTING DEFECT 73 (vertices=24, convex hull=65, v0=116175)
After retessellation of defect 73 (v0=116175), euler #=-39 (151669,453921,302213) : difference with theory (-41) = -2

CORRECTING DEFECT 74 (vertices=39, convex hull=38, v0=116618)
After retessellation of defect 74 (v0=116618), euler #=-38 (151678,453962,302246) : difference with theory (-40) = -2

CORRECTING DEFECT 75 (vertices=436, convex hull=316, v0=121165)
After retessellation of defect 75 (v0=121165), euler #=-38 (151840,454625,302747) : difference with theory (-39) = -1

CORRECTING DEFECT 76 (vertices=22, convex hull=32, v0=123418)
After retessellation of defect 76 (v0=123418), euler #=-37 (151843,454646,302766) : difference with theory (-38) = -1

CORRECTING DEFECT 77 (vertices=61, convex hull=71, v0=123648)
After retessellation of defect 77 (v0=123648), euler #=-36 (151876,454778,302866) : difference with theory (-37) = -1

CORRECTING DEFECT 78 (vertices=71, convex hull=66, v0=124237)
After retessellation of defect 78 (v0=124237), euler #=-35 (151901,454880,302944) : difference with theory (-36) = -1

CORRECTING DEFECT 79 (vertices=5, convex hull=28, v0=124739)
After retessellation of defect 79 (v0=124739), euler #=-34 (151902,454890,302954) : difference with theory (-35) = -1

CORRECTING DEFECT 80 (vertices=48, convex hull=85, v0=124815)
After retessellation of defect 80 (v0=124815), euler #=-33 (151921,454984,303030) : difference with theory (-34) = -1

CORRECTING DEFECT 81 (vertices=94, convex hull=45, v0=125590)
After retessellation of defect 81 (v0=125590), euler #=-32 (151946,455076,303098) : difference with theory (-33) = -1

CORRECTING DEFECT 82 (vertices=6, convex hull=30, v0=126078)
After retessellation of defect 82 (v0=126078), euler #=-31 (151946,455086,303109) : difference with theory (-32) = -1

CORRECTING DEFECT 83 (vertices=10, convex hull=30, v0=126832)
After retessellation of defect 83 (v0=126832), euler #=-30 (151947,455097,303120) : difference with theory (-31) = -1

CORRECTING DEFECT 84 (vertices=28, convex hull=64, v0=126957)
After retessellation of defect 84 (v0=126957), euler #=-29 (151961,455163,303173) : difference with theory (-30) = -1

CORRECTING DEFECT 85 (vertices=170, convex hull=121, v0=129118)
After retessellation of defect 85 (v0=129118), euler #=-28 (152004,455344,303312) : difference with theory (-29) = -1

CORRECTING DEFECT 86 (vertices=16, convex hull=31, v0=130000)
After retessellation of defect 86 (v0=130000), euler #=-27 (152004,455354,303323) : difference with theory (-28) = -1

CORRECTING DEFECT 87 (vertices=31, convex hull=58, v0=132138)
After retessellation of defect 87 (v0=132138), euler #=-26 (152018,455420,303376) : difference with theory (-27) = -1

CORRECTING DEFECT 88 (vertices=22, convex hull=59, v0=134293)
After retessellation of defect 88 (v0=134293), euler #=-25 (152031,455480,303424) : difference with theory (-26) = -1

CORRECTING DEFECT 89 (vertices=25, convex hull=52, v0=134625)
After retessellation of defect 89 (v0=134625), euler #=-24 (152040,455529,303465) : difference with theory (-25) = -1

CORRECTING DEFECT 90 (vertices=124, convex hull=106, v0=135204)
After retessellation of defect 90 (v0=135204), euler #=-25 (152071,455690,303594) : difference with theory (-24) = 1

CORRECTING DEFECT 91 (vertices=12, convex hull=23, v0=135612)
After retessellation of defect 91 (v0=135612), euler #=-24 (152071,455697,303602) : difference with theory (-23) = 1

CORRECTING DEFECT 92 (vertices=55, convex hull=44, v0=135760)
After retessellation of defect 92 (v0=135760), euler #=-23 (152086,455764,303655) : difference with theory (-22) = 1

CORRECTING DEFECT 93 (vertices=31, convex hull=35, v0=136621)
After retessellation of defect 93 (v0=136621), euler #=-21 (152093,455794,303680) : difference with theory (-21) = 0

CORRECTING DEFECT 94 (vertices=20, convex hull=38, v0=138032)
After retessellation of defect 94 (v0=138032), euler #=-20 (152096,455814,303698) : difference with theory (-20) = 0

CORRECTING DEFECT 95 (vertices=34, convex hull=65, v0=138653)
After retessellation of defect 95 (v0=138653), euler #=-19 (152120,455910,303771) : difference with theory (-19) = 0

CORRECTING DEFECT 96 (vertices=35, convex hull=24, v0=138984)
After retessellation of defect 96 (v0=138984), euler #=-17 (152128,455942,303797) : difference with theory (-18) = -1

CORRECTING DEFECT 97 (vertices=37, convex hull=34, v0=139241)
After retessellation of defect 97 (v0=139241), euler #=-16 (152137,455981,303828) : difference with theory (-17) = -1

CORRECTING DEFECT 98 (vertices=5, convex hull=17, v0=139586)
After retessellation of defect 98 (v0=139586), euler #=-15 (152137,455985,303833) : difference with theory (-16) = -1

CORRECTING DEFECT 99 (vertices=51, convex hull=96, v0=142123)
After retessellation of defect 99 (v0=142123), euler #=-14 (152155,456076,303907) : difference with theory (-15) = -1

CORRECTING DEFECT 100 (vertices=69, convex hull=34, v0=142675)
After retessellation of defect 100 (v0=142675), euler #=-13 (152161,456104,303930) : difference with theory (-14) = -1

CORRECTING DEFECT 101 (vertices=16, convex hull=46, v0=144834)
After retessellation of defect 101 (v0=144834), euler #=-12 (152169,456146,303965) : difference with theory (-13) = -1

CORRECTING DEFECT 102 (vertices=116, convex hull=113, v0=146696)
After retessellation of defect 102 (v0=146696), euler #=-11 (152196,456282,304075) : difference with theory (-12) = -1

CORRECTING DEFECT 103 (vertices=34, convex hull=31, v0=147204)
After retessellation of defect 103 (v0=147204), euler #=-10 (152203,456312,304099) : difference with theory (-11) = -1

CORRECTING DEFECT 104 (vertices=25, convex hull=18, v0=147608)
After retessellation of defect 104 (v0=147608), euler #=-9 (152203,456318,304106) : difference with theory (-10) = -1

CORRECTING DEFECT 105 (vertices=57, convex hull=106, v0=148113)
After retessellation of defect 105 (v0=148113), euler #=-8 (152222,456420,304190) : difference with theory (-9) = -1

CORRECTING DEFECT 106 (vertices=46, convex hull=75, v0=150915)
After retessellation of defect 106 (v0=150915), euler #=-7 (152242,456511,304262) : difference with theory (-8) = -1

CORRECTING DEFECT 107 (vertices=31, convex hull=48, v0=151334)
After retessellation of defect 107 (v0=151334), euler #=-6 (152253,456564,304305) : difference with theory (-7) = -1

CORRECTING DEFECT 108 (vertices=10, convex hull=31, v0=151483)
After retessellation of defect 108 (v0=151483), euler #=-5 (152254,456576,304317) : difference with theory (-6) = -1

CORRECTING DEFECT 109 (vertices=35, convex hull=48, v0=151718)
After retessellation of defect 109 (v0=151718), euler #=-4 (152263,456625,304358) : difference with theory (-5) = -1

CORRECTING DEFECT 110 (vertices=38, convex hull=75, v0=153411)
After retessellation of defect 110 (v0=153411), euler #=-3 (152286,456726,304437) : difference with theory (-4) = -1

CORRECTING DEFECT 111 (vertices=152, convex hull=91, v0=156796)
After retessellation of defect 111 (v0=156796), euler #=-3 (152316,456861,304542) : difference with theory (-3) = 0

CORRECTING DEFECT 112 (vertices=37, convex hull=61, v0=157499)
After retessellation of defect 112 (v0=157499), euler #=-2 (152329,456922,304591) : difference with theory (-2) = 0

CORRECTING DEFECT 113 (vertices=55, convex hull=25, v0=157822)
After retessellation of defect 113 (v0=157822), euler #=-1 (152333,456941,304607) : difference with theory (-1) = 0

CORRECTING DEFECT 114 (vertices=27, convex hull=46, v0=158052)
After retessellation of defect 114 (v0=158052), euler #=0 (152339,456979,304640) : difference with theory (0) = 0

CORRECTING DEFECT 115 (vertices=104, convex hull=38, v0=158700)
After retessellation of defect 115 (v0=158700), euler #=1 (152345,457011,304667) : difference with theory (1) = 0

CORRECTING DEFECT 116 (vertices=34, convex hull=53, v0=158771)
After retessellation of defect 116 (v0=158771), euler #=2 (152355,457059,304706) : difference with theory (2) = 0
computing original vertex metric properties...
storing new metric properties...
computing tessellation statistics...
vertex spacing 0.89 +- 0.26 (0.02-->11.14) (max @ vno 214 --> 1259)
face area 0.00 +- 0.00 (0.00-->0.00)
performing soap bubble on retessellated vertices for 0 iterations...
vertex spacing 0.89 +- 0.26 (0.02-->11.14) (max @ vno 214 --> 1259)
face area 0.00 +- 0.00 (0.00-->0.00)
tessellation finished, orienting corrected surface...
403 mutations (36.6%), 699 crossovers (63.4%), 690 vertices were eliminated
building final representation...
7203 vertices and 0 faces have been removed from triangulation
after topology correction, eno=2 (nv=152355, nf=304706, ne=457059, g=0)
writing corrected surface to /study2/emowrap/data/freesurfer/subjects/066/surf/rh.orig...

defective orientation at vertex 149252(149473) with faces 295358 and 304540

defective orientation at vertex 149252(149472) with faces 295358 and 304523

defective orientation at vertex 149472(149252) with faces 295358 and 304523

defective orientation at vertex 149472(149473) with faces 295358 and 304541

defective orientation at vertex 149473(149252) with faces 304540 and 295358

defective orientation at vertex 149473(149472) with faces 304541 and 295358

0.004 % of the vertices (6 vertices) exhibit an orientation change
topology fixing took 104.8 minutes
0 defective edges
removing intersecting faces
000: 1013 intersecting
001: 26 intersecting
002: 2 intersecting
expanding nbhd size to 2
003: 12 intersecting
mris_fix_topology utimesec    6247.615599
mris_fix_topology stimesec    41.329435
mris_fix_topology ru_maxrss   495328
mris_fix_topology ru_ixrss    0
mris_fix_topology ru_idrss    0
mris_fix_topology ru_isrss    0
mris_fix_topology ru_minflt   32818236
mris_fix_topology ru_majflt   0
mris_fix_topology ru_nswap    0
mris_fix_topology ru_inblock  0
mris_fix_topology ru_oublock  14464
mris_fix_topology ru_msgsnd   0
mris_fix_topology ru_msgrcv   0
mris_fix_topology ru_nsignals 0
mris_fix_topology ru_nvcsw    274
mris_fix_topology ru_nivcsw   8287
FSRUNTIME@ mris_fix_topology rh  1.7470 hours 1 threads

 mris_euler_number ../surf/lh.orig

euler # = v-e+f = 2g-2: 144925 - 434769 + 289846 = 2 --> 0 holes
      F =2V-4:          289846 = 289850-4 (0)
      2E=3F:            869538 = 869538 (0)

total defect index = 0

 mris_euler_number ../surf/rh.orig

euler # = v-e+f = 2g-2: 152355 - 457059 + 304706 = 2 --> 0 holes
      F =2V-4:          304706 = 304710-4 (0)
      2E=3F:            914118 = 914118 (0)

total defect index = 0
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_remove_intersection ../surf/lh.orig ../surf/lh.orig

intersection removal took 0.00 hours
removing intersecting faces
000: 583 intersecting
001: 102 intersecting
002: 22 intersecting
003: 2 intersecting
writing corrected surface to ../surf/lh.orig

 rm ../surf/lh.inflated

/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_remove_intersection ../surf/rh.orig ../surf/rh.orig

intersection removal took 0.00 hours
removing intersecting faces
000: 95 intersecting
001: 12 intersecting
002: 10 intersecting
003: 4 intersecting
expanding nbhd size to 2
004: 11 intersecting
writing corrected surface to ../surf/rh.orig

 rm ../surf/rh.inflated

#--------------------------------------------
#@# Make White Surf lh Thu Jan  9 03:48:30 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 066 lh

using white.preaparc as white matter name...
only generating white matter surface
using aseg volume ../mri/aseg.presurf to prevent surfaces crossing the midline
not using aparc to prevent surfaces crossing the midline
INFO: assuming MGZ format for volumes.
using brain.finalsurfs as T1 volume...
$Id: mris_make_surfaces.c,v 1.164.2.4 2016/12/13 22:26:32 zkaufman Exp $
$Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/filled.mgz...
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/brain.finalsurfs.mgz...
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/../mri/aseg.presurf.mgz...
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/wm.mgz...
32301 bright wm thresholded.
4673 bright non-wm voxels segmented.
reading original surface position from /study2/emowrap/data/freesurfer/subjects/066/surf/lh.orig...
computing class statistics...
border white:    294484 voxels (1.76%)
border gray      333423 voxels (1.99%)
WM (96.0): 96.5 +- 9.0 [70.0 --> 110.0]
GM (70.0) : 67.9 +- 12.6 [30.0 --> 110.0]
setting MIN_GRAY_AT_WHITE_BORDER to 53.4 (was 70)
setting MAX_BORDER_WHITE to 110.0 (was 105)
setting MIN_BORDER_WHITE to 66.0 (was 85)
setting MAX_CSF to 40.7 (was 40)
setting MAX_GRAY to 92.0 (was 95)
setting MAX_GRAY_AT_CSF_BORDER to 53.4 (was 75)
setting MIN_GRAY_AT_CSF_BORDER to 28.1 (was 40)
repositioning cortical surface to gray/white boundary
smoothing T1 volume with sigma = 2.000
vertex spacing 0.82 +- 0.27 (0.01-->10.08) (max @ vno 142479 --> 142553)
face area 0.28 +- 0.16 (0.00-->10.63)
mean absolute distance = 0.95 +- 1.27
4790 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
using class modes intead of means, discounting robust sigmas....
intensity peaks found at WM=101+-8.7,    GM=66+-10.4
mean inside = 90.3, mean outside = 70.4
smoothing surface for 5 iterations...
inhibiting deformation at non-cortical midline structures...
mean border=78.5, 782 (782) missing vertices, mean dist 0.1 [1.1 (%36.8)->0.8 (%63.2))]
%40 local maxima, %54 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=2.0, host=c137., nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
complete_dist_mat 0
rms 0
smooth_averages 0
remove_neg 0
ico_order 0
which_surface 0
target_radius 0.000000
nfields 0
scale 0.000000
desired_rms_height 0.000000
momentum 0.000000
nbhd_size 0
max_nbrs 0
niterations 25
nsurfaces 0
SURFACES 3
flags 0 (0)
use curv 0
no sulc 0
no rigid align 0
mris->nsize 2
mris->hemisphere 0
randomSeed 0

smoothing T1 volume with sigma = 1.000
vertex spacing 0.94 +- 0.31 (0.04-->9.76) (max @ vno 142514 --> 142515)
face area 0.28 +- 0.17 (0.00-->7.63)
mean absolute distance = 0.55 +- 0.81
5006 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
000: dt: 0.0000, sse=6029025.5, rms=13.945
001: dt: 0.5000, sse=3843147.8, rms=10.862 (22.109%)
002: dt: 0.5000, sse=2854407.0, rms=9.069 (16.507%)
003: dt: 0.5000, sse=2397556.5, rms=8.099 (10.697%)
004: dt: 0.5000, sse=2161673.2, rms=7.554 (6.729%)
005: dt: 0.5000, sse=2037262.9, rms=7.243 (4.121%)
006: dt: 0.5000, sse=1942598.6, rms=7.008 (3.243%)
007: dt: 0.5000, sse=1872450.9, rms=6.819 (2.697%)
008: dt: 0.5000, sse=1805762.5, rms=6.636 (2.681%)
009: dt: 0.5000, sse=1741327.2, rms=6.465 (2.578%)
010: dt: 0.5000, sse=1679778.6, rms=6.281 (2.846%)
011: dt: 0.5000, sse=1629860.5, rms=6.116 (2.623%)
012: dt: 0.5000, sse=1573243.1, rms=5.943 (2.823%)
013: dt: 0.5000, sse=1513681.1, rms=5.775 (2.833%)
014: dt: 0.5000, sse=1471909.1, rms=5.628 (2.548%)
015: dt: 0.5000, sse=1432965.4, rms=5.492 (2.410%)
016: dt: 0.5000, sse=1395982.4, rms=5.374 (2.161%)
017: dt: 0.5000, sse=1375360.6, rms=5.278 (1.788%)
018: dt: 0.5000, sse=1360976.0, rms=5.192 (1.615%)
019: dt: 0.5000, sse=1316682.6, rms=5.095 (1.865%)
020: dt: 0.5000, sse=1297868.8, rms=5.019 (1.499%)
021: dt: 0.5000, sse=1275538.0, rms=4.936 (1.665%)
022: dt: 0.5000, sse=1275596.4, rms=4.869 (1.338%)
023: dt: 0.5000, sse=1237542.1, rms=4.808 (1.268%)
024: dt: 0.5000, sse=1228361.8, rms=4.749 (1.224%)
rms = 4.70, time step reduction 1 of 3 to 0.250...
025: dt: 0.5000, sse=1211092.9, rms=4.703 (0.974%)
positioning took 3.5 minutes
inhibiting deformation at non-cortical midline structures...
removing 2 vertex label from ripped group
removing 1 vertex label from ripped group
removing 1 vertex label from ripped group
removing 4 vertex label from ripped group
removing 2 vertex label from ripped group
mean border=82.1, 784 (399) missing vertices, mean dist -0.4 [0.7 (%66.1)->0.3 (%33.9))]
%59 local maxima, %35 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=1.0, host=c137., nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 0.500
vertex spacing 0.90 +- 0.30 (0.03-->12.64) (max @ vno 142514 --> 142515)
face area 0.36 +- 0.24 (0.00-->12.66)
mean absolute distance = 0.35 +- 0.53
4721 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
000: dt: 0.0000, sse=2091324.0, rms=6.961
026: dt: 0.5000, sse=1526908.5, rms=5.228 (24.899%)
027: dt: 0.5000, sse=1412755.2, rms=4.832 (7.581%)
028: dt: 0.5000, sse=1376900.2, rms=4.700 (2.723%)
029: dt: 0.5000, sse=1362013.8, rms=4.638 (1.328%)
030: dt: 0.5000, sse=1353543.2, rms=4.577 (1.318%)
rms = 4.55, time step reduction 1 of 3 to 0.250...
031: dt: 0.5000, sse=1345956.0, rms=4.554 (0.498%)
032: dt: 0.2500, sse=1156065.0, rms=3.654 (19.758%)
033: dt: 0.2500, sse=1101129.9, rms=3.391 (7.192%)
034: dt: 0.2500, sse=1091110.5, rms=3.314 (2.292%)
035: dt: 0.2500, sse=1077119.8, rms=3.250 (1.933%)
rms = 3.22, time step reduction 2 of 3 to 0.125...
036: dt: 0.2500, sse=1073807.2, rms=3.220 (0.893%)
037: dt: 0.1250, sse=1050902.9, rms=3.149 (2.235%)
rms = 3.14, time step reduction 3 of 3 to 0.062...
038: dt: 0.1250, sse=1048744.6, rms=3.135 (0.421%)
positioning took 1.8 minutes
inhibiting deformation at non-cortical midline structures...
removing 4 vertex label from ripped group
removing 4 vertex label from ripped group
removing 2 vertex label from ripped group
mean border=85.0, 751 (340) missing vertices, mean dist -0.2 [0.4 (%70.8)->0.2 (%29.2))]
%76 local maxima, %18 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=0.5, host=c137., nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 0.250
vertex spacing 0.89 +- 0.31 (0.03-->13.35) (max @ vno 142514 --> 142515)
face area 0.34 +- 0.23 (0.00-->11.72)
mean absolute distance = 0.27 +- 0.42
4328 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
000: dt: 0.0000, sse=1401315.5, rms=4.974
039: dt: 0.5000, sse=1200874.0, rms=4.076 (18.044%)
rms = 4.19, time step reduction 1 of 3 to 0.250...
040: dt: 0.2500, sse=1067119.6, rms=3.480 (14.624%)
041: dt: 0.2500, sse=1026578.2, rms=3.206 (7.869%)
042: dt: 0.2500, sse=1001034.0, rms=3.124 (2.557%)
rms = 3.10, time step reduction 2 of 3 to 0.125...
043: dt: 0.2500, sse=996644.0, rms=3.098 (0.837%)
044: dt: 0.1250, sse=985299.9, rms=3.044 (1.763%)
rms = 3.03, time step reduction 3 of 3 to 0.062...
045: dt: 0.1250, sse=978350.6, rms=3.031 (0.428%)
positioning took 1.1 minutes
inhibiting deformation at non-cortical midline structures...
removing 1 vertex label from ripped group
removing 4 vertex label from ripped group
removing 2 vertex label from ripped group
mean border=85.9, 820 (311) missing vertices, mean dist -0.1 [0.3 (%57.0)->0.2 (%43.0))]
%81 local maxima, %12 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=0.2, host=c137., nav=0, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
writing white matter surface to /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white.preaparc...
writing smoothed curvature to lh.curv
000: dt: 0.0000, sse=1049474.9, rms=3.476
rms = 3.49, time step reduction 1 of 3 to 0.250...
046: dt: 0.2500, sse=992463.3, rms=3.167 (8.891%)
047: dt: 0.2500, sse=985594.9, rms=3.005 (5.115%)
rms = 3.00, time step reduction 2 of 3 to 0.125...
048: dt: 0.2500, sse=973942.7, rms=3.003 (0.090%)
rms = 2.97, time step reduction 3 of 3 to 0.062...
049: dt: 0.1250, sse=956459.6, rms=2.966 (1.220%)
positioning took 0.7 minutes
generating cortex label...
12 non-cortical segments detected
only using segment with 7490 vertices
erasing segment 1 (vno[0] = 97381)
erasing segment 2 (vno[0] = 98591)
erasing segment 3 (vno[0] = 101112)
erasing segment 4 (vno[0] = 101149)
erasing segment 5 (vno[0] = 102614)
erasing segment 6 (vno[0] = 103488)
erasing segment 7 (vno[0] = 103603)
erasing segment 8 (vno[0] = 104755)
erasing segment 9 (vno[0] = 105682)
erasing segment 10 (vno[0] = 119983)
erasing segment 11 (vno[0] = 143515)
writing cortex label to /study2/emowrap/data/freesurfer/subjects/066/label/lh.cortex.label...
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/lh.curv
writing smoothed area to lh.area
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/lh.area
vertex spacing 0.90 +- 0.33 (0.02-->13.54) (max @ vno 142514 --> 142515)
face area 0.33 +- 0.22 (0.00-->12.39)
refinement took 9.6 minutes
#--------------------------------------------
#@# Make White Surf rh Thu Jan  9 03:58:07 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 066 rh

using white.preaparc as white matter name...
only generating white matter surface
using aseg volume ../mri/aseg.presurf to prevent surfaces crossing the midline
not using aparc to prevent surfaces crossing the midline
INFO: assuming MGZ format for volumes.
using brain.finalsurfs as T1 volume...
$Id: mris_make_surfaces.c,v 1.164.2.4 2016/12/13 22:26:32 zkaufman Exp $
$Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/filled.mgz...
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/brain.finalsurfs.mgz...
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/../mri/aseg.presurf.mgz...
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/wm.mgz...
32301 bright wm thresholded.
4673 bright non-wm voxels segmented.
reading original surface position from /study2/emowrap/data/freesurfer/subjects/066/surf/rh.orig...
computing class statistics...
border white:    294484 voxels (1.76%)
border gray      333423 voxels (1.99%)
WM (96.0): 96.5 +- 9.0 [70.0 --> 110.0]
GM (70.0) : 67.9 +- 12.6 [30.0 --> 110.0]
setting MIN_GRAY_AT_WHITE_BORDER to 55.4 (was 70)
setting MAX_BORDER_WHITE to 110.0 (was 105)
setting MIN_BORDER_WHITE to 68.0 (was 85)
setting MAX_CSF to 42.7 (was 40)
setting MAX_GRAY to 92.0 (was 95)
setting MAX_GRAY_AT_CSF_BORDER to 55.4 (was 75)
setting MIN_GRAY_AT_CSF_BORDER to 30.1 (was 40)
repositioning cortical surface to gray/white boundary
smoothing T1 volume with sigma = 2.000
vertex spacing 0.82 +- 0.23 (0.02-->5.23) (max @ vno 73286 --> 151120)
face area 0.28 +- 0.13 (0.00-->6.32)
mean absolute distance = 0.87 +- 1.19
4849 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
using class modes intead of means, discounting robust sigmas....
intensity peaks found at WM=101+-8.7,    GM=68+-11.3
mean inside = 91.4, mean outside = 71.1
smoothing surface for 5 iterations...
inhibiting deformation at non-cortical midline structures...
mean border=79.9, 369 (369) missing vertices, mean dist 0.1 [1.0 (%40.6)->0.8 (%59.4))]
%39 local maxima, %57 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=2.0, host=c137., nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
complete_dist_mat 0
rms 0
smooth_averages 0
remove_neg 0
ico_order 0
which_surface 0
target_radius 0.000000
nfields 0
scale 0.000000
desired_rms_height 0.000000
momentum 0.000000
nbhd_size 0
max_nbrs 0
niterations 25
nsurfaces 0
SURFACES 3
flags 0 (0)
use curv 0
no sulc 0
no rigid align 0
mris->nsize 2
mris->hemisphere 1
randomSeed 0

smoothing T1 volume with sigma = 1.000
vertex spacing 0.90 +- 0.26 (0.06-->5.02) (max @ vno 151752 --> 151796)
face area 0.28 +- 0.14 (0.00-->4.88)
mean absolute distance = 0.49 +- 0.80
5980 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
000: dt: 0.0000, sse=4981077.0, rms=12.138
001: dt: 0.5000, sse=2688129.0, rms=8.425 (30.588%)
002: dt: 0.5000, sse=1699673.6, rms=6.084 (27.792%)
003: dt: 0.5000, sse=1283351.4, rms=4.794 (21.197%)
004: dt: 0.5000, sse=1118709.4, rms=4.157 (13.289%)
005: dt: 0.5000, sse=1045965.6, rms=3.830 (7.873%)
006: dt: 0.5000, sse=1032938.0, rms=3.685 (3.774%)
007: dt: 0.5000, sse=998103.4, rms=3.630 (1.488%)
rms = 3.58, time step reduction 1 of 3 to 0.250...
008: dt: 0.5000, sse=988440.7, rms=3.583 (1.299%)
009: dt: 0.2500, sse=800099.9, rms=2.460 (31.348%)
010: dt: 0.2500, sse=760374.5, rms=2.142 (12.922%)
011: dt: 0.2500, sse=754947.1, rms=2.068 (3.452%)
012: dt: 0.2500, sse=747266.3, rms=2.016 (2.543%)
rms = 2.00, time step reduction 2 of 3 to 0.125...
013: dt: 0.2500, sse=741239.3, rms=2.002 (0.678%)
014: dt: 0.1250, sse=740390.3, rms=1.882 (5.996%)
rms = 1.86, time step reduction 3 of 3 to 0.062...
015: dt: 0.1250, sse=731146.1, rms=1.862 (1.035%)
positioning took 2.2 minutes
inhibiting deformation at non-cortical midline structures...
removing 2 vertex label from ripped group
removing 2 vertex label from ripped group
removing 4 vertex label from ripped group
mean border=83.3, 315 (111) missing vertices, mean dist -0.3 [0.6 (%68.3)->0.3 (%31.7))]
%57 local maxima, %38 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=1.0, host=c137., nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 0.500
vertex spacing 0.89 +- 0.26 (0.08-->5.06) (max @ vno 151752 --> 151796)
face area 0.34 +- 0.17 (0.00-->5.82)
mean absolute distance = 0.34 +- 0.51
5094 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
000: dt: 0.0000, sse=1524546.8, rms=5.103
016: dt: 0.5000, sse=1135521.8, rms=3.545 (30.545%)
017: dt: 0.5000, sse=1111144.2, rms=3.483 (1.745%)
018: dt: 0.5000, sse=1114413.8, rms=3.395 (2.532%)
rms = 3.53, time step reduction 1 of 3 to 0.250...
019: dt: 0.2500, sse=929045.0, rms=2.411 (28.984%)
020: dt: 0.2500, sse=882271.6, rms=1.945 (19.305%)
021: dt: 0.2500, sse=860973.8, rms=1.777 (8.656%)
022: dt: 0.2500, sse=862162.7, rms=1.716 (3.446%)
rms = 1.67, time step reduction 2 of 3 to 0.125...
023: dt: 0.2500, sse=845222.9, rms=1.672 (2.528%)
024: dt: 0.1250, sse=835409.1, rms=1.572 (6.003%)
rms = 1.55, time step reduction 3 of 3 to 0.062...
025: dt: 0.1250, sse=835136.1, rms=1.550 (1.409%)
positioning took 1.5 minutes
inhibiting deformation at non-cortical midline structures...
removing 1 vertex label from ripped group
removing 3 vertex label from ripped group
removing 2 vertex label from ripped group
removing 2 vertex label from ripped group
removing 2 vertex label from ripped group
removing 3 vertex label from ripped group
removing 2 vertex label from ripped group
mean border=85.8, 275 (48) missing vertices, mean dist -0.2 [0.4 (%68.2)->0.2 (%31.8))]
%74 local maxima, %21 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=0.5, host=c137., nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 0.250
vertex spacing 0.88 +- 0.26 (0.07-->4.99) (max @ vno 151752 --> 151796)
face area 0.33 +- 0.17 (0.00-->5.51)
mean absolute distance = 0.27 +- 0.42
4779 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
000: dt: 0.0000, sse=1175839.2, rms=3.868
026: dt: 0.5000, sse=1047212.1, rms=2.982 (22.909%)
rms = 3.21, time step reduction 1 of 3 to 0.250...
027: dt: 0.2500, sse=875585.6, rms=2.120 (28.894%)
028: dt: 0.2500, sse=837037.8, rms=1.691 (20.257%)
029: dt: 0.2500, sse=822348.1, rms=1.592 (5.822%)
rms = 1.55, time step reduction 2 of 3 to 0.125...
030: dt: 0.2500, sse=830137.6, rms=1.553 (2.463%)
031: dt: 0.1250, sse=812950.4, rms=1.443 (7.090%)
rms = 1.42, time step reduction 3 of 3 to 0.062...
032: dt: 0.1250, sse=797755.3, rms=1.422 (1.432%)
positioning took 1.1 minutes
inhibiting deformation at non-cortical midline structures...
removing 1 vertex label from ripped group
removing 1 vertex label from ripped group
removing 2 vertex label from ripped group
removing 2 vertex label from ripped group
removing 2 vertex label from ripped group
removing 3 vertex label from ripped group
removing 3 vertex label from ripped group
removing 4 vertex label from ripped group
mean border=86.6, 345 (38) missing vertices, mean dist -0.1 [0.3 (%55.6)->0.2 (%44.4))]
%80 local maxima, %16 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=0.2, host=c137., nav=0, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
writing white matter surface to /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white.preaparc...
writing smoothed curvature to rh.curv
000: dt: 0.0000, sse=850747.8, rms=2.033
rms = 2.13, time step reduction 1 of 3 to 0.250...
033: dt: 0.2500, sse=794315.9, rms=1.495 (26.467%)
034: dt: 0.2500, sse=782551.4, rms=1.215 (18.739%)
rms = 1.24, time step reduction 2 of 3 to 0.125...
rms = 1.18, time step reduction 3 of 3 to 0.062...
035: dt: 0.1250, sse=772456.2, rms=1.178 (2.976%)
positioning took 0.6 minutes
generating cortex label...
14 non-cortical segments detected
only using segment with 7134 vertices
erasing segment 1 (vno[0] = 49424)
erasing segment 2 (vno[0] = 58232)
erasing segment 3 (vno[0] = 71886)
erasing segment 4 (vno[0] = 75347)
erasing segment 5 (vno[0] = 99175)
erasing segment 6 (vno[0] = 102731)
erasing segment 7 (vno[0] = 105203)
erasing segment 8 (vno[0] = 106204)
erasing segment 9 (vno[0] = 108327)
erasing segment 10 (vno[0] = 110473)
erasing segment 11 (vno[0] = 111400)
erasing segment 12 (vno[0] = 112216)
erasing segment 13 (vno[0] = 118452)
writing cortex label to /study2/emowrap/data/freesurfer/subjects/066/label/rh.cortex.label...
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/rh.curv
writing smoothed area to rh.area
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/rh.area
vertex spacing 0.88 +- 0.27 (0.04-->4.96) (max @ vno 151752 --> 151796)
face area 0.32 +- 0.17 (0.00-->5.39)
refinement took 8.1 minutes
#--------------------------------------------
#@# Smooth2 lh Thu Jan  9 04:06:13 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_smooth -n 3 -nw -seed 1234 ../surf/lh.white.preaparc ../surf/lh.smoothwm

smoothing for 3 iterations
setting seed for random number generator to 1234
smoothing surface tessellation for 3 iterations...
smoothing complete - recomputing first and second fundamental forms...
#--------------------------------------------
#@# Smooth2 rh Thu Jan  9 04:06:22 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_smooth -n 3 -nw -seed 1234 ../surf/rh.white.preaparc ../surf/rh.smoothwm

smoothing for 3 iterations
setting seed for random number generator to 1234
smoothing surface tessellation for 3 iterations...
smoothing complete - recomputing first and second fundamental forms...
#--------------------------------------------
#@# Inflation2 lh Thu Jan  9 04:06:31 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_inflate -rusage /study2/emowrap/data/freesurfer/subjects/066/touch/rusage.mris_inflate.lh.dat ../surf/lh.smoothwm ../surf/lh.inflated

Reading ../surf/lh.smoothwm
avg radius = 48.1 mm, total surface area = 87725 mm^2
writing inflated surface to ../surf/lh.inflated
writing sulcal depths to ../surf/lh.sulc

step 000: RMS=0.179 (target=0.015)
step 005: RMS=0.130 (target=0.015)   ep 010: RMS=0.101 (target=0.015)   
st015: RMS=0.085 (target=0.015)   
step : RMS=0.071 (target=0.015)   
step 025MS=0.062 (target=0.015)   
step 030: R0.052 (target=0.015)   
step 035: RMS=44 (target=0.015)   
step 040: RMS=0.0(target=0.015)   
step 045: RMS=0.035 rget=0.015)   
step 050: RMS=0.032 (tat=0.015)   
step 055: RMS=0.030 (targe.015)   
step 060: RMS=0.028 (target=05)   
inflation complete.
inflation took 0.8 minutes
mris_inflate utimesec    47.709485
mris_inflate stimesec    0.362003
mris_inflate ru_maxrss   186292
mris_inflate ru_ixrss    0
mris_inflate ru_idrss    0
mris_inflate ru_isrss    0
mris_inflate ru_minflt   274637
mris_inflate ru_majflt   0
mris_inflate ru_nswap    0
mris_inflate ru_inblock  0
mris_inflate ru_oublock  11336
mris_inflate ru_msgsnd   0
mris_inflate ru_msgrcv   0
mris_inflate ru_nsignals 0
mris_inflate ru_nvcsw    115
mris_inflate ru_nivcsw   34
#--------------------------------------------
#@# Inflation2 rh Thu Jan  9 04:07:20 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_inflate -rusage /study2/emowrap/data/freesurfer/subjects/066/touch/rusage.mris_inflate.rh.dat ../surf/rh.smoothwm ../surf/rh.inflated

Reading ../surf/rh.smoothwm
avg radius = 48.6 mm, total surface area = 89854 mm^2
writing inflated surface to ../surf/rh.inflated
writing sulcal depths to ../surf/rh.sulc

step 000: RMS=0.178 (target=0.015)
step 005: RMS=0.128 (target=0.015)   ep 010: RMS=0.099 (target=0.015)   
st015: RMS=0.083 (target=0.015)   
step : RMS=0.070 (target=0.015)   
step 025MS=0.060 (target=0.015)   
step 030: R0.051 (target=0.015)   
step 035: RMS=43 (target=0.015)   
step 040: RMS=0.0(target=0.015)   
step 045: RMS=0.031 rget=0.015)   
step 050: RMS=0.029 (tat=0.015)   
step 055: RMS=0.027 (targe.015)   
step 060: RMS=0.026 (target=05)   
inflation complete.
inflation took 0.9 minutes
mris_inflate utimesec    51.490533
mris_inflate stimesec    0.756007
mris_inflate ru_maxrss   195596
mris_inflate ru_ixrss    0
mris_inflate ru_idrss    0
mris_inflate ru_isrss    0
mris_inflate ru_minflt   434172
mris_inflate ru_majflt   0
mris_inflate ru_nswap    0
mris_inflate ru_inblock  0
mris_inflate ru_oublock  11912
mris_inflate ru_msgsnd   0
mris_inflate ru_msgrcv   0
mris_inflate ru_nsignals 0
mris_inflate ru_nvcsw    179
mris_inflate ru_nivcsw   60
#--------------------------------------------
#@# Curv .H and .K lh Thu Jan  9 04:08:12 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/surf

 mris_curvature -w lh.white.preaparc

total integrated curvature = 30.364*4pi (381.566) --> -29 handles
ICI = 220.5, FI = 2058.0, variation=32827.474
writing Gaussian curvature to ./lh.white.preaparc.K...done.
writing mean curvature to ./lh.white.preaparc.H...done.
rm -f lh.white.H
ln -s lh.white.preaparc.H lh.white.H
rm -f lh.white.K
ln -s lh.white.preaparc.K lh.white.K

 mris_curvature -thresh .999 -n -a 5 -w -distances 10 10 lh.inflated

normalizing curvature values.
averaging curvature patterns 5 times.
sampling 10 neighbors out to a distance of 10 mm
193 vertices thresholded to be in k1 ~ [-0.27 0.56], k2 ~ [-0.14 0.13]
total integrated curvature = 0.471*4pi (5.916) --> 1 handles
ICI = 1.5, FI = 10.0, variation=171.277
148 vertices thresholded to be in [-0.04 0.02]
writing Gaussian curvature to ./lh.inflated.K...thresholding curvature at 99.90% level
curvature mean = 0.000, std = 0.001
131 vertices thresholded to be in [-0.15 0.16]
done.
writing mean curvature to ./lh.inflated.H...curvature mean = -0.016, std = 0.023
done.
#--------------------------------------------
#@# Curv .H and .K rh Thu Jan  9 04:10:02 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/surf

 mris_curvature -w rh.white.preaparc

total integrated curvature = 20.883*4pi (262.421) --> -20 handles
ICI = 222.8, FI = 2098.7, variation=33594.860
writing Gaussian curvature to ./rh.white.preaparc.K...done.
writing mean curvature to ./rh.white.preaparc.H...done.
rm -f rh.white.H
ln -s rh.white.preaparc.H rh.white.H
rm -f rh.white.K
ln -s rh.white.preaparc.K rh.white.K

 mris_curvature -thresh .999 -n -a 5 -w -distances 10 10 rh.inflated

normalizing curvature values.
averaging curvature patterns 5 times.
sampling 10 neighbors out to a distance of 10 mm
185 vertices thresholded to be in k1 ~ [-0.28 0.42], k2 ~ [-0.12 0.10]
total integrated curvature = 0.527*4pi (6.629) --> 0 handles
ICI = 1.5, FI = 9.2, variation=159.774
158 vertices thresholded to be in [-0.02 0.02]
writing Gaussian curvature to ./rh.inflated.K...thresholding curvature at 99.90% level
curvature mean = 0.000, std = 0.001
138 vertices thresholded to be in [-0.15 0.14]
done.
writing mean curvature to ./rh.inflated.H...curvature mean = -0.016, std = 0.021
done.

#-----------------------------------------
#@# Curvature Stats lh Thu Jan  9 04:11:59 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/surf

 mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/lh.curv.stats -F smoothwm 066 lh curv sulc

             Toggling save flag on curvature files                       [ ok ]
                 Outputting results using filestem   [ ../stats/lh.curv.stats ]
             Toggling save flag on curvature files                       [ ok ]
                                   Setting surface          [ 066/lh.smoothwm ]
                                Reading surface...                       [ ok ]
                                   Setting texture                     [ curv ]
                                Reading texture...                       [ ok ]
                                   Setting texture                     [ sulc ]
                                Reading texture...Gb_filter = 0
                       [ ok ]
      Calculating Discrete Principal Curvatures...
   Determining geometric order for vertex faces... [####################] [ ok ]
                      Determining KH curvatures... [####################] [ ok ]
                    Determining k1k2 curvatures... [####################] [ ok ]
                                   deltaViolations                      [ 261 ]
Gb_filter = 0

#-----------------------------------------
#@# Curvature Stats rh Thu Jan  9 04:12:05 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/surf

 mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/rh.curv.stats -F smoothwm 066 rh curv sulc

             Toggling save flag on curvature files                       [ ok ]
                 Outputting results using filestem   [ ../stats/rh.curv.stats ]
             Toggling save flag on curvature files                       [ ok ]
                                   Setting surface          [ 066/rh.smoothwm ]
                                Reading surface...                       [ ok ]
                                   Setting texture                     [ curv ]
                                Reading texture...                       [ ok ]
                                   Setting texture                     [ sulc ]
                                Reading texture...Gb_filter = 0
                       [ ok ]
      Calculating Discrete Principal Curvatures...
   Determining geometric order for vertex faces... [####################] [ ok ]
                      Determining KH curvatures... [####################] [ ok ]
                    Determining k1k2 curvatures... [####################] [ ok ]
                                   deltaViolations                      [ 291 ]
Gb_filter = 0

WARN:    S lookup   min:                          -0.254592
WARN:    S explicit min:                          0.000000	vertex = 24
#--------------------------------------------
#@# Sphere lh Thu Jan  9 04:12:11 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_sphere -rusage /study2/emowrap/data/freesurfer/subjects/066/touch/rusage.mris_sphere.lh.dat -seed 1234 ../surf/lh.inflated ../surf/lh.sphere

setting seed for random number genererator to 1234
$Id: mris_sphere.c,v 1.61 2016/01/20 23:42:15 greve Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading original vertex positions...
unfolding cortex into spherical form...
surface projected - minimizing metric distortion...

== Number of threads available to mris_sphere for OpenMP = 1 ==
scaling brain by 0.277...
MRISunfold() max_passes = 1 -------
tol=5.0e-01, sigma=0.0, host=c137., nav=1024, nbrs=2, l_area=1.000, l_dist=1.000
using quadratic fit line minimization
complete_dist_mat 0
rms 0
smooth_averages 0
remove_neg 0
ico_order 0
which_surface 0
target_radius 0.000000
nfields 0
scale 1.000000
desired_rms_height -1.000000
momentum 0.900000
nbhd_size 7
max_nbrs 8
niterations 25
nsurfaces 0
SURFACES 3
flags 0 (0)
use curv 0
no sulc 0
no rigid align 0
mris->nsize 2
mris->hemisphere 0
randomSeed 1234

--------------------
  mrisRemoveNegativeArea()
pass 1: epoch 1 of 3 starting distance error %21.59
pass 1: epoch 2 of 3 starting distance error %21.44
unfolding complete - removing small folds...
starting distance error %21.27
removing remaining folds...
final distance error %21.29
MRISunfold() return, current seed 1234
-01: dt=0.0000, 677 negative triangles
244: dt=0.9900, 677 negative triangles
245: dt=0.9900, 513 negative triangles
246: dt=0.9900, 513 negative triangles
247: dt=0.9900, 463 negative triangles
248: dt=0.9900, 451 negative triangles
249: dt=0.9900, 424 negative triangles
250: dt=0.9900, 425 negative triangles
251: dt=0.9900, 382 negative triangles
252: dt=0.9900, 366 negative triangles
253: dt=0.9900, 341 negative triangles
254: dt=0.9900, 320 negative triangles
255: dt=0.9900, 311 negative triangles
256: dt=0.9900, 293 negative triangles
257: dt=0.9900, 275 negative triangles
258: dt=0.9900, 272 negative triangles
259: dt=0.9900, 283 negative triangles
260: dt=0.9900, 251 negative triangles
261: dt=0.9900, 259 negative triangles
262: dt=0.9900, 247 negative triangles
263: dt=0.9900, 246 negative triangles
264: dt=0.9900, 244 negative triangles
265: dt=0.9900, 232 negative triangles
266: dt=0.9900, 230 negative triangles
267: dt=0.9900, 241 negative triangles
268: dt=0.9900, 230 negative triangles
269: dt=0.9900, 224 negative triangles
270: dt=0.9900, 221 negative triangles
271: dt=0.9900, 224 negative triangles
272: dt=0.9900, 222 negative triangles
273: dt=0.9900, 212 negative triangles
274: dt=0.9900, 221 negative triangles
275: dt=0.9900, 200 negative triangles
276: dt=0.9900, 216 negative triangles
277: dt=0.9900, 220 negative triangles
278: dt=0.9900, 211 negative triangles
279: dt=0.9900, 221 negative triangles
280: dt=0.9900, 211 negative triangles
281: dt=0.9900, 218 negative triangles
282: dt=0.9900, 209 negative triangles
283: dt=0.9900, 216 negative triangles
284: dt=0.9900, 213 negative triangles
285: dt=0.9405, 223 negative triangles
286: dt=0.9405, 214 negative triangles
287: dt=0.9405, 222 negative triangles
288: dt=0.9405, 217 negative triangles
289: dt=0.9405, 207 negative triangles
290: dt=0.9405, 207 negative triangles
291: dt=0.9405, 202 negative triangles
292: dt=0.9405, 205 negative triangles
293: dt=0.9405, 207 negative triangles
294: dt=0.9405, 203 negative triangles
295: dt=0.9405, 187 negative triangles
296: dt=0.9405, 196 negative triangles
297: dt=0.9405, 200 negative triangles
298: dt=0.9405, 203 negative triangles
299: dt=0.9405, 192 negative triangles
300: dt=0.9405, 201 negative triangles
301: dt=0.9405, 188 negative triangles
302: dt=0.9405, 177 negative triangles
303: dt=0.9405, 184 negative triangles
304: dt=0.9405, 186 negative triangles
305: dt=0.9405, 186 negative triangles
306: dt=0.9405, 182 negative triangles
307: dt=0.9405, 182 negative triangles
308: dt=0.9405, 191 negative triangles
309: dt=0.9405, 171 negative triangles
310: dt=0.9405, 176 negative triangles
311: dt=0.9405, 159 negative triangles
312: dt=0.9405, 164 negative triangles
313: dt=0.9405, 162 negative triangles
314: dt=0.9405, 160 negative triangles
315: dt=0.9405, 159 negative triangles
316: dt=0.9405, 154 negative triangles
317: dt=0.9405, 143 negative triangles
318: dt=0.9405, 153 negative triangles
319: dt=0.9405, 146 negative triangles
320: dt=0.9405, 139 negative triangles
321: dt=0.9405, 126 negative triangles
322: dt=0.9405, 138 negative triangles
323: dt=0.9405, 129 negative triangles
324: dt=0.9405, 127 negative triangles
325: dt=0.9405, 118 negative triangles
326: dt=0.9405, 130 negative triangles
327: dt=0.9405, 119 negative triangles
328: dt=0.9405, 124 negative triangles
329: dt=0.9405, 119 negative triangles
330: dt=0.9405, 118 negative triangles
331: dt=0.9405, 109 negative triangles
332: dt=0.9405, 115 negative triangles
333: dt=0.9405, 112 negative triangles
334: dt=0.9405, 113 negative triangles
335: dt=0.9405, 111 negative triangles
336: dt=0.9405, 115 negative triangles
337: dt=0.9405, 110 negative triangles
338: dt=0.9405, 110 negative triangles
339: dt=0.9405, 106 negative triangles
340: dt=0.9405, 108 negative triangles
341: dt=0.9405, 101 negative triangles
342: dt=0.9405, 111 negative triangles
343: dt=0.9405, 106 negative triangles
344: dt=0.9405, 104 negative triangles
345: dt=0.9405, 101 negative triangles
346: dt=0.9405, 105 negative triangles
347: dt=0.9405, 100 negative triangles
348: dt=0.9405, 100 negative triangles
349: dt=0.9405, 99 negative triangles
350: dt=0.9405, 96 negative triangles
351: dt=0.9405, 95 negative triangles
352: dt=0.9405, 92 negative triangles
353: dt=0.9405, 91 negative triangles
354: dt=0.9405, 94 negative triangles
355: dt=0.9405, 86 negative triangles
356: dt=0.9405, 91 negative triangles
357: dt=0.9405, 87 negative triangles
358: dt=0.9405, 88 negative triangles
359: dt=0.9405, 80 negative triangles
360: dt=0.9405, 92 negative triangles
361: dt=0.9405, 77 negative triangles
362: dt=0.9405, 86 negative triangles
363: dt=0.9405, 81 negative triangles
364: dt=0.9405, 82 negative triangles
365: dt=0.9405, 80 negative triangles
366: dt=0.9405, 78 negative triangles
367: dt=0.9405, 77 negative triangles
368: dt=0.9405, 83 negative triangles
369: dt=0.9405, 78 negative triangles
370: dt=0.9405, 86 negative triangles
371: dt=0.8935, 79 negative triangles
372: dt=0.8935, 78 negative triangles
373: dt=0.8935, 82 negative triangles
374: dt=0.8935, 80 negative triangles
375: dt=0.8935, 82 negative triangles
376: dt=0.8935, 83 negative triangles
377: dt=0.8935, 80 negative triangles
378: dt=0.8935, 82 negative triangles
379: dt=0.8935, 81 negative triangles
380: dt=0.8935, 80 negative triangles
381: dt=0.8488, 79 negative triangles
382: dt=0.8488, 80 negative triangles
383: dt=0.8488, 79 negative triangles
384: dt=0.8488, 82 negative triangles
385: dt=0.8488, 82 negative triangles
386: dt=0.8488, 87 negative triangles
387: dt=0.8488, 84 negative triangles
388: dt=0.8488, 80 negative triangles
389: dt=0.8488, 78 negative triangles
390: dt=0.8488, 81 negative triangles
391: dt=0.8064, 78 negative triangles
392: dt=0.8064, 79 negative triangles
393: dt=0.8064, 81 negative triangles
394: dt=0.8064, 81 negative triangles
395: dt=0.8064, 76 negative triangles
396: dt=0.8064, 79 negative triangles
397: dt=0.8064, 79 negative triangles
398: dt=0.8064, 81 negative triangles
399: dt=0.8064, 77 negative triangles
400: dt=0.8064, 82 negative triangles
401: dt=0.8064, 80 negative triangles
402: dt=0.8064, 83 negative triangles
403: dt=0.8064, 80 negative triangles
404: dt=0.8064, 77 negative triangles
405: dt=0.7660, 80 negative triangles
406: dt=0.7660, 79 negative triangles
407: dt=0.7660, 74 negative triangles
408: dt=0.7660, 77 negative triangles
409: dt=0.7660, 76 negative triangles
410: dt=0.7660, 77 negative triangles
411: dt=0.7660, 77 negative triangles
412: dt=0.7660, 73 negative triangles
413: dt=0.7660, 72 negative triangles
414: dt=0.7660, 77 negative triangles
415: dt=0.7660, 74 negative triangles
416: dt=0.7660, 76 negative triangles
417: dt=0.7660, 77 negative triangles
418: dt=0.7660, 78 negative triangles
419: dt=0.7660, 71 negative triangles
420: dt=0.7660, 74 negative triangles
421: dt=0.7660, 73 negative triangles
422: dt=0.7660, 74 negative triangles
423: dt=0.7660, 72 negative triangles
424: dt=0.7660, 73 negative triangles
425: dt=0.7660, 74 negative triangles
426: dt=0.7660, 74 negative triangles
427: dt=0.7660, 74 negative triangles
428: dt=0.7660, 70 negative triangles
429: dt=0.7660, 71 negative triangles
430: dt=0.7660, 71 negative triangles
431: dt=0.7660, 65 negative triangles
432: dt=0.7660, 71 negative triangles
433: dt=0.7660, 71 negative triangles
434: dt=0.7660, 71 negative triangles
435: dt=0.7660, 67 negative triangles
436: dt=0.7660, 65 negative triangles
437: dt=0.7660, 63 negative triangles
438: dt=0.7660, 63 negative triangles
439: dt=0.7660, 68 negative triangles
440: dt=0.7660, 65 negative triangles
441: dt=0.7660, 63 negative triangles
442: dt=0.7660, 69 negative triangles
443: dt=0.7660, 68 negative triangles
444: dt=0.7660, 68 negative triangles
445: dt=0.7660, 66 negative triangles
446: dt=0.7660, 63 negative triangles
447: dt=0.7277, 68 negative triangles
448: dt=0.7277, 67 negative triangles
449: dt=0.7277, 58 negative triangles
450: dt=0.7277, 62 negative triangles
451: dt=0.7277, 56 negative triangles
452: dt=0.7277, 58 negative triangles
453: dt=0.7277, 56 negative triangles
454: dt=0.7277, 60 negative triangles
455: dt=0.7277, 55 negative triangles
456: dt=0.7277, 53 negative triangles
457: dt=0.7277, 53 negative triangles
458: dt=0.7277, 60 negative triangles
459: dt=0.7277, 56 negative triangles
460: dt=0.7277, 59 negative triangles
461: dt=0.7277, 50 negative triangles
462: dt=0.7277, 53 negative triangles
463: dt=0.7277, 51 negative triangles
464: dt=0.7277, 58 negative triangles
465: dt=0.7277, 49 negative triangles
466: dt=0.7277, 54 negative triangles
467: dt=0.7277, 52 negative triangles
468: dt=0.7277, 51 negative triangles
469: dt=0.7277, 50 negative triangles
470: dt=0.7277, 53 negative triangles
471: dt=0.7277, 53 negative triangles
472: dt=0.7277, 51 negative triangles
473: dt=0.7277, 50 negative triangles
474: dt=0.7277, 50 negative triangles
475: dt=0.6914, 49 negative triangles
476: dt=0.6914, 49 negative triangles
477: dt=0.6914, 47 negative triangles
478: dt=0.6914, 50 negative triangles
479: dt=0.6914, 45 negative triangles
480: dt=0.6914, 47 negative triangles
481: dt=0.6914, 46 negative triangles
482: dt=0.6914, 49 negative triangles
483: dt=0.6914, 47 negative triangles
484: dt=0.6914, 50 negative triangles
485: dt=0.6914, 48 negative triangles
486: dt=0.6914, 46 negative triangles
487: dt=0.6914, 50 negative triangles
488: dt=0.6914, 48 negative triangles
489: dt=0.6568, 51 negative triangles
490: dt=0.6568, 48 negative triangles
491: dt=0.6568, 50 negative triangles
492: dt=0.6568, 47 negative triangles
493: dt=0.6568, 49 negative triangles
494: dt=0.6568, 47 negative triangles
495: dt=0.6568, 50 negative triangles
496: dt=0.6568, 47 negative triangles
497: dt=0.6568, 49 negative triangles
498: dt=0.6568, 47 negative triangles
499: dt=0.6239, 46 negative triangles
500: dt=0.6239, 45 negative triangles
501: dt=0.6239, 46 negative triangles
502: dt=0.6239, 49 negative triangles
503: dt=0.6239, 47 negative triangles
504: dt=0.6239, 47 negative triangles
505: dt=0.6239, 47 negative triangles
506: dt=0.6239, 43 negative triangles
507: dt=0.6239, 48 negative triangles
508: dt=0.6239, 46 negative triangles
509: dt=0.6239, 46 negative triangles
510: dt=0.6239, 44 negative triangles
511: dt=0.6239, 47 negative triangles
512: dt=0.6239, 46 negative triangles
513: dt=0.6239, 43 negative triangles
514: dt=0.6239, 48 negative triangles
515: dt=0.6239, 45 negative triangles
516: dt=0.5927, 43 negative triangles
517: dt=0.5927, 45 negative triangles
518: dt=0.5927, 46 negative triangles
519: dt=0.5927, 43 negative triangles
520: dt=0.5927, 43 negative triangles
521: dt=0.5927, 40 negative triangles
522: dt=0.5927, 45 negative triangles
523: dt=0.5927, 47 negative triangles
524: dt=0.5927, 42 negative triangles
525: dt=0.5927, 43 negative triangles
526: dt=0.5927, 45 negative triangles
527: dt=0.5927, 42 negative triangles
528: dt=0.5927, 43 negative triangles
529: dt=0.5927, 40 negative triangles
530: dt=0.5927, 45 negative triangles
531: dt=0.5631, 41 negative triangles
532: dt=0.5631, 39 negative triangles
533: dt=0.5631, 39 negative triangles
534: dt=0.5631, 37 negative triangles
535: dt=0.5631, 41 negative triangles
536: dt=0.5631, 40 negative triangles
537: dt=0.5631, 36 negative triangles
538: dt=0.5631, 34 negative triangles
539: dt=0.5631, 35 negative triangles
540: dt=0.5631, 38 negative triangles
541: dt=0.5631, 38 negative triangles
542: dt=0.5631, 35 negative triangles
543: dt=0.5631, 41 negative triangles
544: dt=0.5631, 38 negative triangles
545: dt=0.5631, 34 negative triangles
546: dt=0.5631, 38 negative triangles
547: dt=0.5631, 37 negative triangles
548: dt=0.5350, 36 negative triangles
549: dt=0.5350, 34 negative triangles
550: dt=0.5350, 38 negative triangles
551: dt=0.5350, 39 negative triangles
552: dt=0.5350, 36 negative triangles
553: dt=0.5350, 37 negative triangles
554: dt=0.5350, 34 negative triangles
555: dt=0.5350, 39 negative triangles
556: dt=0.5350, 37 negative triangles
557: dt=0.5350, 36 negative triangles
558: dt=0.5350, 31 negative triangles
559: dt=0.5350, 39 negative triangles
560: dt=0.5350, 37 negative triangles
561: dt=0.5350, 32 negative triangles
562: dt=0.5350, 40 negative triangles
563: dt=0.5350, 37 negative triangles
564: dt=0.5350, 36 negative triangles
565: dt=0.5350, 36 negative triangles
566: dt=0.5350, 37 negative triangles
567: dt=0.5350, 35 negative triangles
568: dt=0.5082, 34 negative triangles
569: dt=0.5082, 36 negative triangles
570: dt=0.5082, 37 negative triangles
571: dt=0.5082, 32 negative triangles
572: dt=0.5082, 36 negative triangles
573: dt=0.5082, 33 negative triangles
574: dt=0.5082, 33 negative triangles
575: dt=0.5082, 35 negative triangles
576: dt=0.5082, 37 negative triangles
577: dt=0.5082, 31 negative triangles
578: dt=0.4828, 31 negative triangles
579: dt=0.4828, 33 negative triangles
580: dt=0.4828, 32 negative triangles
581: dt=0.4828, 34 negative triangles
582: dt=0.4828, 34 negative triangles
583: dt=0.4828, 31 negative triangles
584: dt=0.4828, 33 negative triangles
585: dt=0.4828, 28 negative triangles
586: dt=0.4828, 28 negative triangles
587: dt=0.4828, 32 negative triangles
588: dt=0.4828, 29 negative triangles
589: dt=0.4828, 27 negative triangles
590: dt=0.4828, 28 negative triangles
591: dt=0.4828, 30 negative triangles
592: dt=0.4828, 25 negative triangles
593: dt=0.4828, 29 negative triangles
594: dt=0.4828, 26 negative triangles
595: dt=0.4828, 30 negative triangles
596: dt=0.4828, 28 negative triangles
597: dt=0.4828, 25 negative triangles
598: dt=0.4828, 26 negative triangles
599: dt=0.4828, 25 negative triangles
600: dt=0.4828, 30 negative triangles
601: dt=0.4828, 20 negative triangles
602: dt=0.4828, 23 negative triangles
603: dt=0.4828, 23 negative triangles
604: dt=0.4828, 23 negative triangles
605: dt=0.4828, 19 negative triangles
606: dt=0.4828, 21 negative triangles
607: dt=0.4828, 15 negative triangles
608: dt=0.4828, 15 negative triangles
609: dt=0.4828, 16 negative triangles
610: dt=0.4828, 22 negative triangles
611: dt=0.4828, 13 negative triangles
612: dt=0.4828, 14 negative triangles
613: dt=0.4828, 17 negative triangles
614: dt=0.4828, 17 negative triangles
615: dt=0.4828, 12 negative triangles
616: dt=0.4828, 16 negative triangles
617: dt=0.4828, 16 negative triangles
618: dt=0.4828, 10 negative triangles
619: dt=0.4828, 11 negative triangles
620: dt=0.4828, 10 negative triangles
621: dt=0.4828, 9 negative triangles
622: dt=0.4828, 12 negative triangles
623: dt=0.4828, 10 negative triangles
624: dt=0.4828, 10 negative triangles
625: dt=0.4828, 10 negative triangles
626: dt=0.4828, 9 negative triangles
627: dt=0.4828, 7 negative triangles
628: dt=0.4828, 11 negative triangles
629: dt=0.4828, 8 negative triangles
630: dt=0.4828, 6 negative triangles
631: dt=0.4828, 5 negative triangles
632: dt=0.4828, 5 negative triangles
633: dt=0.4828, 3 negative triangles
634: dt=0.4828, 2 negative triangles
635: dt=0.4828, 3 negative triangles
636: dt=0.4828, 4 negative triangles
637: dt=0.4828, 4 negative triangles
638: dt=0.4828, 2 negative triangles
639: dt=0.4828, 3 negative triangles
640: dt=0.4828, 2 negative triangles
641: dt=0.4828, 2 negative triangles
642: dt=0.4828, 2 negative triangles
643: dt=0.4828, 2 negative triangles
644: dt=0.4587, 2 negative triangles
645: dt=0.4587, 2 negative triangles
646: dt=0.4587, 2 negative triangles
647: dt=0.4587, 2 negative triangles
648: dt=0.4587, 2 negative triangles
649: dt=0.4587, 2 negative triangles
650: dt=0.4587, 2 negative triangles
651: dt=0.4587, 2 negative triangles
652: dt=0.4587, 1 negative triangles
653: dt=0.4587, 1 negative triangles
654: dt=0.4587, 1 negative triangles
655: dt=0.4587, 1 negative triangles
656: dt=0.4587, 1 negative triangles
657: dt=0.4587, 1 negative triangles
658: dt=0.4587, 1 negative triangles
659: dt=0.4587, 1 negative triangles
660: dt=0.4587, 1 negative triangles
661: dt=0.4587, 1 negative triangles
662: dt=0.4357, 1 negative triangles
663: dt=0.4357, 1 negative triangles
664: dt=0.4357, 1 negative triangles
665: dt=0.4357, 1 negative triangles
666: dt=0.4357, 1 negative triangles
667: dt=0.4357, 1 negative triangles
668: dt=0.4357, 1 negative triangles
669: dt=0.4357, 1 negative triangles
670: dt=0.4357, 1 negative triangles
671: dt=0.4357, 1 negative triangles
672: dt=0.4139, 1 negative triangles
673: dt=0.4139, 1 negative triangles
674: dt=0.4139, 1 negative triangles
675: dt=0.4139, 1 negative triangles
676: dt=0.4139, 1 negative triangles
677: dt=0.4139, 1 negative triangles
678: dt=0.4139, 1 negative triangles
expanding nbhd size to 1
679: dt=0.9900, 1 negative triangles
680: dt=0.9900, 7 negative triangles
681: dt=0.9900, 5 negative triangles
682: dt=0.9405, 4 negative triangles
683: dt=0.9405, 4 negative triangles
684: dt=0.9405, 3 negative triangles
685: dt=0.9405, 2 negative triangles
686: dt=0.9405, 1 negative triangles
687: dt=0.9405, 2 negative triangles
688: dt=0.9405, 2 negative triangles
689: dt=0.9405, 1 negative triangles
690: dt=0.9405, 2 negative triangles
691: dt=0.9405, 2 negative triangles
692: dt=0.8935, 2 negative triangles
693: dt=0.8935, 1 negative triangles
694: dt=0.8935, 3 negative triangles
695: dt=0.8935, 9 negative triangles
696: dt=0.8935, 12 negative triangles
697: dt=0.8935, 20 negative triangles
698: dt=0.8935, 24 negative triangles
699: dt=0.8935, 31 negative triangles
700: dt=0.8935, 31 negative triangles
701: dt=0.8935, 36 negative triangles
702: dt=0.8488, 34 negative triangles
703: dt=0.8488, 36 negative triangles
704: dt=0.8488, 37 negative triangles
705: dt=0.8488, 36 negative triangles
706: dt=0.8488, 36 negative triangles
707: dt=0.8488, 36 negative triangles
708: dt=0.8488, 37 negative triangles
709: dt=0.8488, 36 negative triangles
710: dt=0.8488, 36 negative triangles
711: dt=0.8488, 36 negative triangles
712: dt=0.8064, 37 negative triangles
713: dt=0.8064, 36 negative triangles
714: dt=0.8064, 36 negative triangles
715: dt=0.8064, 35 negative triangles
716: dt=0.8064, 36 negative triangles
717: dt=0.8064, 36 negative triangles
718: dt=0.8064, 38 negative triangles
719: dt=0.8064, 36 negative triangles
720: dt=0.8064, 36 negative triangles
721: dt=0.8064, 36 negative triangles
722: dt=0.7660, 37 negative triangles
723: dt=0.7660, 36 negative triangles
724: dt=0.7660, 36 negative triangles
725: dt=0.7660, 35 negative triangles
726: dt=0.7660, 36 negative triangles
727: dt=0.7660, 36 negative triangles
728: dt=0.7660, 37 negative triangles
729: dt=0.7660, 36 negative triangles
730: dt=0.7660, 36 negative triangles
731: dt=0.7660, 36 negative triangles
732: dt=0.7277, 35 negative triangles
733: dt=0.7277, 35 negative triangles
734: dt=0.7277, 36 negative triangles
735: dt=0.7277, 36 negative triangles
736: dt=0.7277, 35 negative triangles
737: dt=0.7277, 35 negative triangles
738: dt=0.7277, 34 negative triangles
739: dt=0.7277, 35 negative triangles
740: dt=0.7277, 37 negative triangles
741: dt=0.7277, 35 negative triangles
742: dt=0.6914, 35 negative triangles
743: dt=0.6914, 34 negative triangles
744: dt=0.6914, 34 negative triangles
745: dt=0.6914, 34 negative triangles
746: dt=0.6914, 33 negative triangles
747: dt=0.6914, 34 negative triangles
748: dt=0.6914, 34 negative triangles
749: dt=0.6914, 34 negative triangles
750: dt=0.6914, 34 negative triangles
751: dt=0.6914, 35 negative triangles
752: dt=0.6568, 34 negative triangles
753: dt=0.6568, 34 negative triangles
754: dt=0.6568, 33 negative triangles
755: dt=0.6568, 34 negative triangles
756: dt=0.6568, 34 negative triangles
757: dt=0.6568, 35 negative triangles
758: dt=0.6568, 34 negative triangles
759: dt=0.6568, 34 negative triangles
760: dt=0.6568, 33 negative triangles
761: dt=0.6568, 34 negative triangles
762: dt=0.6239, 34 negative triangles
763: dt=0.6239, 35 negative triangles
764: dt=0.6239, 34 negative triangles
765: dt=0.6239, 34 negative triangles
766: dt=0.6239, 33 negative triangles
767: dt=0.6239, 34 negative triangles
768: dt=0.6239, 34 negative triangles
769: dt=0.6239, 35 negative triangles
770: dt=0.6239, 34 negative triangles
771: dt=0.6239, 34 negative triangles
772: dt=0.5927, 32 negative triangles
773: dt=0.5927, 33 negative triangles
774: dt=0.5927, 33 negative triangles
775: dt=0.5927, 34 negative triangles
776: dt=0.5927, 32 negative triangles
777: dt=0.5927, 33 negative triangles
778: dt=0.5927, 33 negative triangles
779: dt=0.5927, 33 negative triangles
780: dt=0.5927, 33 negative triangles
781: dt=0.5927, 33 negative triangles
782: dt=0.5631, 32 negative triangles
783: dt=0.5631, 33 negative triangles
784: dt=0.5631, 33 negative triangles
785: dt=0.5631, 33 negative triangles
786: dt=0.5631, 32 negative triangles
787: dt=0.5631, 33 negative triangles
788: dt=0.5631, 34 negative triangles
789: dt=0.5631, 33 negative triangles
790: dt=0.5631, 33 negative triangles
791: dt=0.5631, 32 negative triangles
792: dt=0.5350, 33 negative triangles
793: dt=0.5350, 32 negative triangles
794: dt=0.5350, 33 negative triangles
795: dt=0.5350, 30 negative triangles
796: dt=0.5350, 31 negative triangles
797: dt=0.5350, 30 negative triangles
798: dt=0.5350, 30 negative triangles
799: dt=0.5350, 28 negative triangles
800: dt=0.5350, 29 negative triangles
801: dt=0.5350, 30 negative triangles
802: dt=0.5082, 29 negative triangles
803: dt=0.5082, 28 negative triangles
804: dt=0.5082, 29 negative triangles
805: dt=0.5082, 29 negative triangles
806: dt=0.5082, 29 negative triangles
807: dt=0.5082, 28 negative triangles
808: dt=0.5082, 29 negative triangles
809: dt=0.5082, 30 negative triangles
810: dt=0.5082, 28 negative triangles
811: dt=0.5082, 27 negative triangles
812: dt=0.4828, 27 negative triangles
813: dt=0.4828, 27 negative triangles
814: dt=0.4828, 27 negative triangles
815: dt=0.4828, 27 negative triangles
816: dt=0.4828, 25 negative triangles
817: dt=0.4828, 26 negative triangles
818: dt=0.4828, 28 negative triangles
819: dt=0.4828, 27 negative triangles
820: dt=0.4828, 27 negative triangles
821: dt=0.4828, 26 negative triangles
822: dt=0.4587, 25 negative triangles
823: dt=0.4587, 24 negative triangles
824: dt=0.4587, 27 negative triangles
825: dt=0.4587, 26 negative triangles
826: dt=0.4587, 25 negative triangles
827: dt=0.4587, 26 negative triangles
828: dt=0.4587, 26 negative triangles
829: dt=0.4587, 25 negative triangles
830: dt=0.4587, 24 negative triangles
831: dt=0.4587, 25 negative triangles
832: dt=0.4357, 24 negative triangles
833: dt=0.4357, 22 negative triangles
834: dt=0.4357, 23 negative triangles
835: dt=0.4357, 22 negative triangles
836: dt=0.4357, 21 negative triangles
837: dt=0.4357, 23 negative triangles
838: dt=0.4357, 23 negative triangles
839: dt=0.4357, 21 negative triangles
840: dt=0.4357, 21 negative triangles
841: dt=0.4357, 22 negative triangles
842: dt=0.4139, 21 negative triangles
843: dt=0.4139, 21 negative triangles
844: dt=0.4139, 21 negative triangles
845: dt=0.4139, 23 negative triangles
846: dt=0.4139, 20 negative triangles
847: dt=0.4139, 22 negative triangles
848: dt=0.4139, 20 negative triangles
849: dt=0.4139, 20 negative triangles
850: dt=0.4139, 20 negative triangles
851: dt=0.4139, 21 negative triangles
852: dt=0.3932, 19 negative triangles
853: dt=0.3932, 21 negative triangles
854: dt=0.3932, 20 negative triangles
855: dt=0.3932, 20 negative triangles
856: dt=0.3932, 20 negative triangles
857: dt=0.3932, 21 negative triangles
858: dt=0.3932, 19 negative triangles
859: dt=0.3932, 21 negative triangles
860: dt=0.3932, 18 negative triangles
861: dt=0.3932, 20 negative triangles
862: dt=0.3736, 19 negative triangles
863: dt=0.3736, 20 negative triangles
864: dt=0.3736, 18 negative triangles
865: dt=0.3736, 20 negative triangles
866: dt=0.3736, 18 negative triangles
867: dt=0.3736, 20 negative triangles
868: dt=0.3736, 19 negative triangles
869: dt=0.3736, 19 negative triangles
870: dt=0.3736, 18 negative triangles
871: dt=0.3736, 17 negative triangles
872: dt=0.3549, 17 negative triangles
873: dt=0.3549, 18 negative triangles
874: dt=0.3549, 17 negative triangles
875: dt=0.3549, 17 negative triangles
876: dt=0.3549, 18 negative triangles
877: dt=0.3549, 16 negative triangles
878: dt=0.3549, 18 negative triangles
879: dt=0.3549, 16 negative triangles
880: dt=0.3549, 16 negative triangles
881: dt=0.3549, 16 negative triangles
882: dt=0.3372, 16 negative triangles
883: dt=0.3372, 16 negative triangles
884: dt=0.3372, 16 negative triangles
885: dt=0.3372, 16 negative triangles
886: dt=0.3372, 16 negative triangles
887: dt=0.3372, 16 negative triangles
888: dt=0.3372, 16 negative triangles
889: dt=0.3372, 15 negative triangles
890: dt=0.3372, 17 negative triangles
891: dt=0.3372, 15 negative triangles
892: dt=0.3203, 17 negative triangles
893: dt=0.3203, 17 negative triangles
894: dt=0.3203, 16 negative triangles
895: dt=0.3203, 16 negative triangles
896: dt=0.3203, 15 negative triangles
897: dt=0.3203, 16 negative triangles
898: dt=0.3203, 14 negative triangles
899: dt=0.3203, 16 negative triangles
900: dt=0.3203, 15 negative triangles
901: dt=0.3203, 15 negative triangles
902: dt=0.3043, 15 negative triangles
903: dt=0.3043, 14 negative triangles
904: dt=0.3043, 14 negative triangles
905: dt=0.3043, 12 negative triangles
906: dt=0.3043, 14 negative triangles
907: dt=0.3043, 12 negative triangles
908: dt=0.3043, 14 negative triangles
909: dt=0.3043, 11 negative triangles
910: dt=0.3043, 11 negative triangles
911: dt=0.3043, 11 negative triangles
912: dt=0.2891, 11 negative triangles
913: dt=0.2891, 12 negative triangles
914: dt=0.2891, 10 negative triangles
915: dt=0.2891, 12 negative triangles
916: dt=0.2891, 12 negative triangles
917: dt=0.2891, 10 negative triangles
918: dt=0.2891, 10 negative triangles
919: dt=0.2891, 11 negative triangles
920: dt=0.2891, 9 negative triangles
921: dt=0.2891, 10 negative triangles
922: dt=0.2746, 10 negative triangles
923: dt=0.2746, 10 negative triangles
924: dt=0.2746, 10 negative triangles
925: dt=0.2746, 10 negative triangles
926: dt=0.2746, 11 negative triangles
927: dt=0.2746, 10 negative triangles
928: dt=0.2746, 8 negative triangles
929: dt=0.2746, 9 negative triangles
930: dt=0.2746, 9 negative triangles
931: dt=0.2746, 8 negative triangles
932: dt=0.2609, 8 negative triangles
933: dt=0.2609, 7 negative triangles
934: dt=0.2609, 8 negative triangles
935: dt=0.2609, 6 negative triangles
936: dt=0.2609, 8 negative triangles
937: dt=0.2609, 6 negative triangles
938: dt=0.2609, 7 negative triangles
939: dt=0.2609, 8 negative triangles
940: dt=0.2609, 7 negative triangles
941: dt=0.2609, 8 negative triangles
942: dt=0.2478, 6 negative triangles
943: dt=0.2478, 6 negative triangles
944: dt=0.2478, 8 negative triangles
945: dt=0.2478, 5 negative triangles
946: dt=0.2478, 6 negative triangles
947: dt=0.2478, 6 negative triangles
948: dt=0.2478, 6 negative triangles
949: dt=0.2478, 6 negative triangles
950: dt=0.2478, 6 negative triangles
951: dt=0.2478, 5 negative triangles
952: dt=0.2354, 5 negative triangles
953: dt=0.2354, 5 negative triangles
954: dt=0.2354, 7 negative triangles
955: dt=0.2354, 5 negative triangles
956: dt=0.2354, 6 negative triangles
957: dt=0.2354, 7 negative triangles
958: dt=0.2354, 5 negative triangles
959: dt=0.2354, 5 negative triangles
960: dt=0.2354, 5 negative triangles
961: dt=0.2354, 5 negative triangles
962: dt=0.2237, 6 negative triangles
963: dt=0.2237, 5 negative triangles
964: dt=0.2237, 4 negative triangles
965: dt=0.2237, 4 negative triangles
966: dt=0.2237, 5 negative triangles
967: dt=0.2237, 3 negative triangles
968: dt=0.2237, 2 negative triangles
969: dt=0.2237, 2 negative triangles
970: dt=0.2237, 2 negative triangles
971: dt=0.2237, 3 negative triangles
972: dt=0.2125, 2 negative triangles
973: dt=0.2125, 1 negative triangles
974: dt=0.2125, 3 negative triangles
975: dt=0.2125, 1 negative triangles
976: dt=0.2125, 2 negative triangles
977: dt=0.2125, 3 negative triangles
978: dt=0.2125, 2 negative triangles
979: dt=0.2125, 2 negative triangles
980: dt=0.2125, 2 negative triangles
981: dt=0.2125, 2 negative triangles
982: dt=0.2019, 2 negative triangles
983: dt=0.2019, 1 negative triangles
984: dt=0.2019, 2 negative triangles
985: dt=0.2019, 3 negative triangles
986: dt=0.2019, 1 negative triangles
987: dt=0.2019, 1 negative triangles
988: dt=0.2019, 2 negative triangles
989: dt=0.2019, 1 negative triangles
990: dt=0.2019, 2 negative triangles
991: dt=0.2019, 1 negative triangles
992: dt=0.1918, 2 negative triangles
993: dt=0.1918, 2 negative triangles
994: dt=0.1918, 2 negative triangles
995: dt=0.1918, 2 negative triangles
996: dt=0.1918, 1 negative triangles
997: dt=0.1918, 1 negative triangles
998: dt=0.1918, 1 negative triangles
999: dt=0.1918, 2 negative triangles
1000: dt=0.1918, 1 negative triangles
1001: dt=0.1918, 1 negative triangles
1002: dt=0.1822, 2 negative triangles
1003: dt=0.1822, 2 negative triangles
1004: dt=0.1822, 1 negative triangles
1005: dt=0.1822, 1 negative triangles
writing spherical brain to ../surf/lh.sphere
spherical transformation took 1.75 hours
mris_sphere utimesec    6308.961465
mris_sphere stimesec    3.678047
mris_sphere ru_maxrss   256220
mris_sphere ru_ixrss    0
mris_sphere ru_idrss    0
mris_sphere ru_isrss    0
mris_sphere ru_minflt   2960036
mris_sphere ru_majflt   0
mris_sphere ru_nswap    0
mris_sphere ru_inblock  0
mris_sphere ru_oublock  10200
mris_sphere ru_msgsnd   0
mris_sphere ru_msgrcv   0
mris_sphere ru_nsignals 0
mris_sphere ru_nvcsw    124
mris_sphere ru_nivcsw   1878
FSRUNTIME@ mris_sphere  1.7535 hours 1 threads
#--------------------------------------------
#@# Sphere rh Thu Jan  9 05:57:24 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_sphere -rusage /study2/emowrap/data/freesurfer/subjects/066/touch/rusage.mris_sphere.rh.dat -seed 1234 ../surf/rh.inflated ../surf/rh.sphere

setting seed for random number genererator to 1234
$Id: mris_sphere.c,v 1.61 2016/01/20 23:42:15 greve Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading original vertex positions...
unfolding cortex into spherical form...
surface projected - minimizing metric distortion...

== Number of threads available to mris_sphere for OpenMP = 1 ==
scaling brain by 0.269...
MRISunfold() max_passes = 1 -------
tol=5.0e-01, sigma=0.0, host=c137., nav=1024, nbrs=2, l_area=1.000, l_dist=1.000
using quadratic fit line minimization
complete_dist_mat 0
rms 0
smooth_averages 0
remove_neg 0
ico_order 0
which_surface 0
target_radius 0.000000
nfields 0
scale 1.000000
desired_rms_height -1.000000
momentum 0.900000
nbhd_size 7
max_nbrs 8
niterations 25
nsurfaces 0
SURFACES 3
flags 0 (0)
use curv 0
no sulc 0
no rigid align 0
mris->nsize 2
mris->hemisphere 1
randomSeed 1234

--------------------
  mrisRemoveNegativeArea()
pass 1: epoch 1 of 3 starting distance error %20.83
pass 1: epoch 2 of 3 starting distance error %20.75
unfolding complete - removing small folds...
starting distance error %20.64
removing remaining folds...
final distance error %20.67
MRISunfold() return, current seed 1234
-01: dt=0.0000, 451 negative triangles
190: dt=0.9900, 451 negative triangles
191: dt=0.9900, 251 negative triangles
192: dt=0.9900, 210 negative triangles
193: dt=0.9900, 191 negative triangles
194: dt=0.9900, 166 negative triangles
195: dt=0.9900, 152 negative triangles
196: dt=0.9900, 148 negative triangles
197: dt=0.9900, 137 negative triangles
198: dt=0.9900, 135 negative triangles
199: dt=0.9900, 118 negative triangles
200: dt=0.9900, 126 negative triangles
201: dt=0.9900, 108 negative triangles
202: dt=0.9900, 119 negative triangles
203: dt=0.9900, 108 negative triangles
204: dt=0.9900, 99 negative triangles
205: dt=0.9900, 99 negative triangles
206: dt=0.9900, 99 negative triangles
207: dt=0.9900, 93 negative triangles
208: dt=0.9900, 83 negative triangles
209: dt=0.9900, 81 negative triangles
210: dt=0.9900, 91 negative triangles
211: dt=0.9900, 67 negative triangles
212: dt=0.9900, 80 negative triangles
213: dt=0.9900, 63 negative triangles
214: dt=0.9900, 55 negative triangles
215: dt=0.9900, 57 negative triangles
216: dt=0.9900, 49 negative triangles
217: dt=0.9900, 45 negative triangles
218: dt=0.9900, 39 negative triangles
219: dt=0.9900, 34 negative triangles
220: dt=0.9900, 23 negative triangles
221: dt=0.9900, 23 negative triangles
222: dt=0.9900, 17 negative triangles
223: dt=0.9900, 11 negative triangles
224: dt=0.9900, 13 negative triangles
225: dt=0.9900, 8 negative triangles
226: dt=0.9900, 1 negative triangles
227: dt=0.9900, 3 negative triangles
228: dt=0.9900, 5 negative triangles
229: dt=0.9900, 1 negative triangles
writing spherical brain to ../surf/rh.sphere
spherical transformation took 0.93 hours
mris_sphere utimesec    3328.804023
mris_sphere stimesec    1.542937
mris_sphere ru_maxrss   269064
mris_sphere ru_ixrss    0
mris_sphere ru_idrss    0
mris_sphere ru_isrss    0
mris_sphere ru_minflt   750913
mris_sphere ru_majflt   0
mris_sphere ru_nswap    0
mris_sphere ru_inblock  0
mris_sphere ru_oublock  10720
mris_sphere ru_msgsnd   0
mris_sphere ru_msgrcv   0
mris_sphere ru_nsignals 0
mris_sphere ru_nvcsw    207
mris_sphere ru_nivcsw   4513
FSRUNTIME@ mris_sphere  0.9251 hours 1 threads
#--------------------------------------------
#@# Surf Reg lh Thu Jan  9 06:52:54 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_register -curv -rusage /study2/emowrap/data/freesurfer/subjects/066/touch/rusage.mris_register.lh.dat ../surf/lh.sphere /apps/x86_64_sci7/freesurfer-6.0.0/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/lh.sphere.reg

using smoothwm curvature for final alignment

cwd /study2/emowrap/data/freesurfer/subjects/066/scripts
cmdline mris_register -curv -rusage /study2/emowrap/data/freesurfer/subjects/066/touch/rusage.mris_register.lh.dat ../surf/lh.sphere /apps/x86_64_sci7/freesurfer-6.0.0/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/lh.sphere.reg

0 inflated.H
1 sulc
2 smoothwm (computed)
$Id: mris_register.c,v 1.63 2016/01/20 23:43:04 greve Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading surface from ../surf/lh.sphere...
reading template parameterization from /apps/x86_64_sci7/freesurfer-6.0.0/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif...
MRISregister() -------
max_passes = 4
min_degrees = 0.500000
max_degrees = 64.000000
nangles = 8
tol=5.0e-01, sigma=0.0, host=c137., nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=1.000, l_dist=5.000
using quadratic fit line minimization
complete_dist_mat 0
rms 0
smooth_averages 0
remove_neg 0
ico_order 0
which_surface 0
target_radius 0.000000
nfields 0
scale 0.000000
desired_rms_height -1.000000
momentum 0.950000
nbhd_size -10
max_nbrs 10
niterations 25
nsurfaces 0
SURFACES 3
flags 16 (10)
use curv 16
no sulc 0
no rigid align 0
mris->nsize 1
mris->hemisphere 0
randomSeed 0

tol=5.0e-01, sigma=0.0, host=c137., nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=1.000, l_dist=5.000
using quadratic fit line minimization
--------------------
1 Reading lh.sulc
curvature mean = -0.000, std = 5.595
curvature mean = 0.047, std = 0.818
curvature mean = 0.028, std = 0.863
Starting MRISrigidBodyAlignGlobal()
  d=64.00 min @ (16.00, 0.00, 0.00) sse = 382403.4, tmin=1.2535
  d=32.00 min @ (-8.00, -8.00, 8.00) sse = 275551.8, tmin=2.5197
  d=16.00 min @ (4.00, 0.00, 0.00) sse = 263680.0, tmin=3.7993
  d=8.00 min @ (0.00, 2.00, 0.00) sse = 263675.0, tmin=5.0822
  d=4.00 min @ (0.00, -1.00, 0.00) sse = 260635.3, tmin=6.3524
  d=2.00 min @ (0.00, 0.00, -0.50) sse = 260504.1, tmin=7.5813
  d=1.00 min @ (-0.50, -0.25, 0.25) sse = 260313.1, tmin=8.8136
  d=0.50 min @ (0.12, 0.12, 0.00) sse = 260275.2, tmin=10.0567
tol=1.0e+00, sigma=0.5, host=c137., nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=0.050, l_spring=0.500, l_dist=5.000
using quadratic fit line minimization
MRISrigidBodyAlignGlobal() done  10.06 min
curvature mean = 0.001, std = 0.824
curvature mean = 0.010, std = 0.943
curvature mean = -0.007, std = 0.832
curvature mean = 0.003, std = 0.975
curvature mean = -0.008, std = 0.834
curvature mean = 0.001, std = 0.989
2 Reading smoothwm
curvature mean = -0.038, std = 0.457
curvature mean = 0.038, std = 0.248
curvature mean = 0.057, std = 0.217
curvature mean = 0.030, std = 0.310
curvature mean = 0.033, std = 0.334
curvature mean = 0.028, std = 0.337
curvature mean = 0.019, std = 0.430
curvature mean = 0.028, std = 0.349
curvature mean = 0.007, std = 0.521
MRISregister() return, current seed 0
-01: dt=0.0000, 346 negative triangles
126: dt=0.9900, 346 negative triangles
expanding nbhd size to 1
127: dt=0.9900, 386 negative triangles
128: dt=0.9900, 312 negative triangles
129: dt=0.9900, 299 negative triangles
130: dt=0.9900, 300 negative triangles
131: dt=0.9900, 280 negative triangles
132: dt=0.9900, 279 negative triangles
133: dt=0.9900, 270 negative triangles
134: dt=0.9900, 255 negative triangles
135: dt=0.9900, 236 negative triangles
136: dt=0.9900, 224 negative triangles
137: dt=0.9900, 224 negative triangles
138: dt=0.9900, 213 negative triangles
139: dt=0.9900, 216 negative triangles
140: dt=0.9900, 219 negative triangles
141: dt=0.9900, 206 negative triangles
142: dt=0.9900, 192 negative triangles
143: dt=0.9900, 186 negative triangles
144: dt=0.9900, 185 negative triangles
145: dt=0.9900, 190 negative triangles
146: dt=0.9900, 186 negative triangles
147: dt=0.9900, 188 negative triangles
148: dt=0.9900, 187 negative triangles
149: dt=0.9900, 183 negative triangles
150: dt=0.9900, 176 negative triangles
151: dt=0.9900, 170 negative triangles
152: dt=0.9900, 164 negative triangles
153: dt=0.9900, 160 negative triangles
154: dt=0.9900, 163 negative triangles
155: dt=0.9900, 157 negative triangles
156: dt=0.9900, 163 negative triangles
157: dt=0.9900, 155 negative triangles
158: dt=0.9900, 151 negative triangles
159: dt=0.9900, 147 negative triangles
160: dt=0.9900, 142 negative triangles
161: dt=0.9900, 141 negative triangles
162: dt=0.9900, 135 negative triangles
163: dt=0.9900, 143 negative triangles
164: dt=0.9900, 136 negative triangles
165: dt=0.9900, 131 negative triangles
166: dt=0.9900, 127 negative triangles
167: dt=0.9900, 126 negative triangles
168: dt=0.9900, 121 negative triangles
169: dt=0.9900, 126 negative triangles
170: dt=0.9900, 125 negative triangles
171: dt=0.9900, 119 negative triangles
172: dt=0.9900, 115 negative triangles
173: dt=0.9900, 115 negative triangles
174: dt=0.9900, 110 negative triangles
175: dt=0.9900, 109 negative triangles
176: dt=0.9900, 104 negative triangles
177: dt=0.9900, 108 negative triangles
178: dt=0.9900, 106 negative triangles
179: dt=0.9900, 100 negative triangles
180: dt=0.9900, 103 negative triangles
181: dt=0.9900, 104 negative triangles
182: dt=0.9900, 104 negative triangles
183: dt=0.9900, 95 negative triangles
184: dt=0.9900, 88 negative triangles
185: dt=0.9900, 89 negative triangles
186: dt=0.9900, 92 negative triangles
187: dt=0.9900, 94 negative triangles
188: dt=0.9900, 93 negative triangles
189: dt=0.9900, 84 negative triangles
190: dt=0.9900, 83 negative triangles
191: dt=0.9900, 80 negative triangles
192: dt=0.9900, 80 negative triangles
193: dt=0.9900, 82 negative triangles
194: dt=0.9900, 85 negative triangles
195: dt=0.9900, 82 negative triangles
196: dt=0.9900, 76 negative triangles
197: dt=0.9900, 75 negative triangles
198: dt=0.9900, 72 negative triangles
199: dt=0.9900, 75 negative triangles
200: dt=0.9900, 70 negative triangles
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206: dt=0.9900, 59 negative triangles
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208: dt=0.9900, 52 negative triangles
209: dt=0.9900, 51 negative triangles
210: dt=0.9900, 53 negative triangles
211: dt=0.9900, 45 negative triangles
212: dt=0.9900, 44 negative triangles
213: dt=0.9900, 43 negative triangles
214: dt=0.9900, 41 negative triangles
215: dt=0.9900, 40 negative triangles
216: dt=0.9900, 34 negative triangles
217: dt=0.9900, 31 negative triangles
218: dt=0.9900, 28 negative triangles
219: dt=0.9900, 30 negative triangles
220: dt=0.9900, 28 negative triangles
221: dt=0.9900, 25 negative triangles
222: dt=0.9900, 22 negative triangles
223: dt=0.9900, 20 negative triangles
224: dt=0.9900, 19 negative triangles
225: dt=0.9900, 13 negative triangles
226: dt=0.9900, 14 negative triangles
227: dt=0.9900, 12 negative triangles
228: dt=0.9900, 13 negative triangles
229: dt=0.9900, 10 negative triangles
230: dt=0.9900, 14 negative triangles
231: dt=0.9900, 9 negative triangles
232: dt=0.9900, 8 negative triangles
233: dt=0.9900, 10 negative triangles
234: dt=0.9900, 7 negative triangles
235: dt=0.9900, 8 negative triangles
236: dt=0.9900, 3 negative triangles
237: dt=0.9900, 4 negative triangles
238: dt=0.9900, 4 negative triangles
239: dt=0.9900, 2 negative triangles
240: dt=0.9900, 2 negative triangles
241: dt=0.9900, 2 negative triangles
242: dt=0.9900, 1 negative triangles
writing registered surface to ../surf/lh.sphere.reg...
registration took 1.09 hours
mris_register utimesec    3913.292340
mris_register stimesec    0.994012
mris_register ru_maxrss   240576
mris_register ru_ixrss    0
mris_register ru_idrss    0
mris_register ru_isrss    0
mris_register ru_minflt   224059
mris_register ru_majflt   0
mris_register ru_nswap    0
mris_register ru_inblock  0
mris_register ru_oublock  10200
mris_register ru_msgsnd   0
mris_register ru_msgrcv   0
mris_register ru_nsignals 0
mris_register ru_nvcsw    174
mris_register ru_nivcsw   1305
FSRUNTIME@ mris_register  1.0873 hours 1 threads
#--------------------------------------------
#@# Surf Reg rh Thu Jan  9 07:58:09 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_register -curv -rusage /study2/emowrap/data/freesurfer/subjects/066/touch/rusage.mris_register.rh.dat ../surf/rh.sphere /apps/x86_64_sci7/freesurfer-6.0.0/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/rh.sphere.reg

using smoothwm curvature for final alignment

cwd /study2/emowrap/data/freesurfer/subjects/066/scripts
cmdline mris_register -curv -rusage /study2/emowrap/data/freesurfer/subjects/066/touch/rusage.mris_register.rh.dat ../surf/rh.sphere /apps/x86_64_sci7/freesurfer-6.0.0/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/rh.sphere.reg

0 inflated.H
1 sulc
2 smoothwm (computed)
$Id: mris_register.c,v 1.63 2016/01/20 23:43:04 greve Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading surface from ../surf/rh.sphere...
reading template parameterization from /apps/x86_64_sci7/freesurfer-6.0.0/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif...
MRISregister() -------
max_passes = 4
min_degrees = 0.500000
max_degrees = 64.000000
nangles = 8
tol=5.0e-01, sigma=0.0, host=c137., nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=1.000, l_dist=5.000
using quadratic fit line minimization
complete_dist_mat 0
rms 0
smooth_averages 0
remove_neg 0
ico_order 0
which_surface 0
target_radius 0.000000
nfields 0
scale 0.000000
desired_rms_height -1.000000
momentum 0.950000
nbhd_size -10
max_nbrs 10
niterations 25
nsurfaces 0
SURFACES 3
flags 16 (10)
use curv 16
no sulc 0
no rigid align 0
mris->nsize 1
mris->hemisphere 1
randomSeed 0

tol=5.0e-01, sigma=0.0, host=c137., nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=1.000, l_dist=5.000
using quadratic fit line minimization
--------------------
1 Reading rh.sulc
curvature mean = -0.000, std = 5.568
curvature mean = 0.034, std = 0.813
curvature mean = 0.027, std = 0.853
Starting MRISrigidBodyAlignGlobal()
  d=64.00 min @ (16.00, -16.00, 0.00) sse = 391424.5, tmin=1.2455
  d=32.00 min @ (0.00, 8.00, 0.00) sse = 288359.2, tmin=2.5223
  d=16.00 min @ (-4.00, 0.00, 0.00) sse = 270879.7, tmin=3.8442
  d=8.00 min @ (0.00, -2.00, 0.00) sse = 269236.1, tmin=5.2084
  d=4.00 min @ (1.00, 1.00, 1.00) sse = 266332.7, tmin=6.5117
  d=2.00 min @ (-0.50, 0.00, -0.50) sse = 265790.0, tmin=7.8139
  d=1.00 min @ (0.25, 0.00, 0.00) sse = 265719.6, tmin=9.1169
  d=0.50 min @ (0.00, 0.12, 0.12) sse = 265681.1, tmin=10.4242
tol=1.0e+00, sigma=0.5, host=c137., nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=0.050, l_spring=0.500, l_dist=5.000
using quadratic fit line minimization
MRISrigidBodyAlignGlobal() done  10.42 min
curvature mean = -0.002, std = 0.818
curvature mean = 0.009, std = 0.945
curvature mean = -0.009, std = 0.824
curvature mean = 0.003, std = 0.978
curvature mean = -0.011, std = 0.824
curvature mean = 0.000, std = 0.991
2 Reading smoothwm
curvature mean = -0.035, std = 0.353
curvature mean = 0.032, std = 0.242
curvature mean = 0.066, std = 0.284
curvature mean = 0.026, std = 0.300
curvature mean = 0.038, std = 0.432
curvature mean = 0.025, std = 0.327
curvature mean = 0.022, std = 0.555
curvature mean = 0.025, std = 0.338
curvature mean = 0.008, std = 0.665
MRISregister() return, current seed 0
-01: dt=0.0000, 107 negative triangles
120: dt=0.9900, 107 negative triangles
expanding nbhd size to 1
121: dt=0.9900, 133 negative triangles
122: dt=0.9900, 91 negative triangles
123: dt=0.9900, 76 negative triangles
124: dt=0.9900, 75 negative triangles
125: dt=0.9900, 62 negative triangles
126: dt=0.9900, 53 negative triangles
127: dt=0.9900, 42 negative triangles
128: dt=0.9900, 43 negative triangles
129: dt=0.9900, 31 negative triangles
130: dt=0.9900, 35 negative triangles
131: dt=0.9900, 34 negative triangles
132: dt=0.9900, 24 negative triangles
133: dt=0.9900, 19 negative triangles
134: dt=0.9900, 21 negative triangles
135: dt=0.9900, 20 negative triangles
136: dt=0.9900, 15 negative triangles
137: dt=0.9900, 14 negative triangles
138: dt=0.9900, 12 negative triangles
139: dt=0.9900, 11 negative triangles
140: dt=0.9900, 10 negative triangles
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142: dt=0.9900, 11 negative triangles
143: dt=0.9900, 10 negative triangles
144: dt=0.9900, 9 negative triangles
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147: dt=0.9900, 6 negative triangles
148: dt=0.9900, 8 negative triangles
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150: dt=0.9900, 6 negative triangles
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157: dt=0.9900, 3 negative triangles
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160: dt=0.9900, 1 negative triangles
161: dt=0.9900, 1 negative triangles
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216: dt=0.7660, 1 negative triangles
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220: dt=0.7277, 1 negative triangles
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240: dt=0.6568, 1 negative triangles
241: dt=0.6568, 1 negative triangles
242: dt=0.6568, 1 negative triangles
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250: dt=0.6239, 1 negative triangles
251: dt=0.6239, 1 negative triangles
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256: dt=0.6239, 1 negative triangles
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258: dt=0.6239, 1 negative triangles
259: dt=0.6239, 1 negative triangles
260: dt=0.5927, 1 negative triangles
261: dt=0.5927, 1 negative triangles
262: dt=0.5927, 1 negative triangles
263: dt=0.5927, 1 negative triangles
264: dt=0.5927, 1 negative triangles
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266: dt=0.5927, 1 negative triangles
267: dt=0.5927, 1 negative triangles
268: dt=0.5927, 1 negative triangles
269: dt=0.5927, 1 negative triangles
270: dt=0.5631, 1 negative triangles
271: dt=0.5631, 1 negative triangles
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274: dt=0.5631, 1 negative triangles
275: dt=0.5631, 1 negative triangles
276: dt=0.5631, 1 negative triangles
277: dt=0.5631, 1 negative triangles
278: dt=0.5631, 1 negative triangles
279: dt=0.5631, 1 negative triangles
280: dt=0.5350, 1 negative triangles
281: dt=0.5350, 1 negative triangles
282: dt=0.5350, 1 negative triangles
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284: dt=0.5350, 1 negative triangles
285: dt=0.5350, 1 negative triangles
286: dt=0.5350, 1 negative triangles
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288: dt=0.5350, 1 negative triangles
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290: dt=0.5082, 1 negative triangles
291: dt=0.5082, 1 negative triangles
292: dt=0.5082, 1 negative triangles
293: dt=0.5082, 1 negative triangles
294: dt=0.5082, 1 negative triangles
295: dt=0.5082, 1 negative triangles
296: dt=0.5082, 1 negative triangles
297: dt=0.5082, 1 negative triangles
298: dt=0.5082, 1 negative triangles
299: dt=0.5082, 1 negative triangles
300: dt=0.4828, 1 negative triangles
301: dt=0.4828, 1 negative triangles
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304: dt=0.4828, 1 negative triangles
305: dt=0.4828, 1 negative triangles
306: dt=0.4828, 1 negative triangles
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310: dt=0.4587, 1 negative triangles
311: dt=0.4587, 1 negative triangles
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314: dt=0.4587, 1 negative triangles
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318: dt=0.4587, 1 negative triangles
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320: dt=0.4357, 1 negative triangles
321: dt=0.4357, 1 negative triangles
322: dt=0.4357, 1 negative triangles
323: dt=0.4357, 1 negative triangles
324: dt=0.4357, 1 negative triangles
325: dt=0.4357, 1 negative triangles
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328: dt=0.4357, 1 negative triangles
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330: dt=0.4139, 1 negative triangles
331: dt=0.4139, 1 negative triangles
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333: dt=0.4139, 1 negative triangles
334: dt=0.4139, 1 negative triangles
335: dt=0.4139, 1 negative triangles
336: dt=0.4139, 1 negative triangles
337: dt=0.4139, 1 negative triangles
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339: dt=0.4139, 1 negative triangles
340: dt=0.3932, 1 negative triangles
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342: dt=0.3932, 1 negative triangles
343: dt=0.3932, 1 negative triangles
344: dt=0.3932, 1 negative triangles
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347: dt=0.3932, 1 negative triangles
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350: dt=0.3736, 1 negative triangles
351: dt=0.3736, 1 negative triangles
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360: dt=0.3549, 1 negative triangles
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377: dt=0.3372, 1 negative triangles
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410: dt=0.2746, 1 negative triangles
411: dt=0.2746, 1 negative triangles
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413: dt=0.2746, 1 negative triangles
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415: dt=0.2746, 1 negative triangles
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423: dt=0.2609, 1 negative triangles
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427: dt=0.2609, 1 negative triangles
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430: dt=0.2478, 1 negative triangles
431: dt=0.2478, 1 negative triangles
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433: dt=0.2478, 1 negative triangles
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435: dt=0.2478, 1 negative triangles
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440: dt=0.2354, 1 negative triangles
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451: dt=0.2237, 1 negative triangles
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457: dt=0.2237, 1 negative triangles
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460: dt=0.2125, 1 negative triangles
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470: dt=0.2019, 1 negative triangles
471: dt=0.2019, 1 negative triangles
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1079: dt=0.0098, 1 negative triangles
1080: dt=0.0098, 1 negative triangles
1081: dt=0.0098, 1 negative triangles
1082: dt=0.0098, 1 negative triangles
1083: dt=0.0098, 1 negative triangles
1084: dt=0.0098, 1 negative triangles
1085: dt=0.0098, 1 negative triangles
1086: dt=0.0098, 1 negative triangles
1087: dt=0.0098, 1 negative triangles
1088: dt=0.0098, 1 negative triangles
1089: dt=0.0098, 1 negative triangles
1090: dt=0.0098, 1 negative triangles
1091: dt=0.0098, 1 negative triangles
1092: dt=0.0098, 1 negative triangles
1093: dt=0.0098, 1 negative triangles
1094: dt=0.0098, 1 negative triangles
1095: dt=0.0098, 1 negative triangles
1096: dt=0.0098, 1 negative triangles
1097: dt=0.0098, 1 negative triangles
1098: dt=0.0098, 1 negative triangles
1099: dt=0.0098, 1 negative triangles
1100: dt=0.0098, 1 negative triangles
1101: dt=0.0098, 1 negative triangles
1102: dt=0.0098, 1 negative triangles
1103: dt=0.0098, 1 negative triangles
1104: dt=0.0098, 1 negative triangles
1105: dt=0.0098, 1 negative triangles
1106: dt=0.0098, 1 negative triangles
1107: dt=0.0098, 1 negative triangles
1108: dt=0.0098, 1 negative triangles
1109: dt=0.0098, 1 negative triangles
1110: dt=0.0098, 1 negative triangles
1111: dt=0.0098, 1 negative triangles
1112: dt=0.0098, 1 negative triangles
1113: dt=0.0098, 1 negative triangles
1114: dt=0.0098, 1 negative triangles
1115: dt=0.0098, 1 negative triangles
1116: dt=0.0098, 1 negative triangles
1117: dt=0.0098, 1 negative triangles
1118: dt=0.0098, 1 negative triangles
1119: dt=0.0098, 1 negative triangles
writing registered surface to ../surf/rh.sphere.reg...
1120: dt=0.0098, 1 negative triangles
1121: 1 negative triangles
registration took 1.63 hours
mris_register utimesec    5847.357291
mris_register stimesec    2.098882
mris_register ru_maxrss   248828
mris_register ru_ixrss    0
mris_register ru_idrss    0
mris_register ru_isrss    0
mris_register ru_minflt   544121
mris_register ru_majflt   0
mris_register ru_nswap    0
mris_register ru_inblock  0
mris_register ru_oublock  10720
mris_register ru_msgsnd   0
mris_register ru_msgrcv   0
mris_register ru_nsignals 0
mris_register ru_nvcsw    195
mris_register ru_nivcsw   17563
FSRUNTIME@ mris_register  1.6265 hours 1 threads
#--------------------------------------------
#@# Jacobian white lh Thu Jan  9 09:35:44 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_jacobian ../surf/lh.white.preaparc ../surf/lh.sphere.reg ../surf/lh.jacobian_white

reading surface from ../surf/lh.white.preaparc...
writing curvature file ../surf/lh.jacobian_white
#--------------------------------------------
#@# Jacobian white rh Thu Jan  9 09:35:47 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_jacobian ../surf/rh.white.preaparc ../surf/rh.sphere.reg ../surf/rh.jacobian_white

reading surface from ../surf/rh.white.preaparc...
writing curvature file ../surf/rh.jacobian_white
#--------------------------------------------
#@# AvgCurv lh Thu Jan  9 09:35:50 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mrisp_paint -a 5 /apps/x86_64_sci7/freesurfer-6.0.0/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif#6 ../surf/lh.sphere.reg ../surf/lh.avg_curv

averaging curvature patterns 5 times...
reading surface from ../surf/lh.sphere.reg...
reading template parameterization from /apps/x86_64_sci7/freesurfer-6.0.0/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif...
writing curvature file to ../surf/lh.avg_curv...
#--------------------------------------------
#@# AvgCurv rh Thu Jan  9 09:35:53 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mrisp_paint -a 5 /apps/x86_64_sci7/freesurfer-6.0.0/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif#6 ../surf/rh.sphere.reg ../surf/rh.avg_curv

averaging curvature patterns 5 times...
reading surface from ../surf/rh.sphere.reg...
reading template parameterization from /apps/x86_64_sci7/freesurfer-6.0.0/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif...
writing curvature file to ../surf/rh.avg_curv...
#-----------------------------------------
#@# Cortical Parc lh Thu Jan  9 09:35:56 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 066 lh ../surf/lh.sphere.reg /apps/x86_64_sci7/freesurfer-6.0.0/average/lh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.annot

setting seed for random number generator to 1234
using ../mri/aseg.presurf.mgz aseg volume to correct midline
$Id: mris_ca_label.c,v 1.37 2014/02/04 17:46:42 fischl Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading atlas from /apps/x86_64_sci7/freesurfer-6.0.0/average/lh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs...
reading color table from GCSA file....
average std = 0.8   using min determinant for regularization = 0.006
0 singular and 342 ill-conditioned covariance matrices regularized
input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature
labeling surface...
1444 labels changed using aseg
relabeling using gibbs priors...
000:   3219 changed, 144925 examined...
001:    760 changed, 13632 examined...
002:    186 changed, 4187 examined...
003:     66 changed, 1096 examined...
004:     35 changed, 388 examined...
005:     11 changed, 171 examined...
006:      9 changed, 66 examined...
007:      0 changed, 49 examined...
264 labels changed using aseg
000: 124 total segments, 63 labels (523 vertices) changed
001: 62 total segments, 2 labels (2 vertices) changed
002: 60 total segments, 0 labels (0 vertices) changed
10 filter iterations complete (10 requested, 7 changed)
rationalizing unknown annotations with cortex label
relabeling unknown label...
relabeling corpuscallosum label...
2055 vertices marked for relabeling...
2055 labels changed in reclassification.
writing output to ../label/lh.aparc.annot...
classification took 0 minutes and 25 seconds.
#-----------------------------------------
#@# Cortical Parc rh Thu Jan  9 09:36:21 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 066 rh ../surf/rh.sphere.reg /apps/x86_64_sci7/freesurfer-6.0.0/average/rh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/rh.aparc.annot

setting seed for random number generator to 1234
using ../mri/aseg.presurf.mgz aseg volume to correct midline
$Id: mris_ca_label.c,v 1.37 2014/02/04 17:46:42 fischl Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading atlas from /apps/x86_64_sci7/freesurfer-6.0.0/average/rh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs...
reading color table from GCSA file....
average std = 0.7   using min determinant for regularization = 0.004
0 singular and 309 ill-conditioned covariance matrices regularized
input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature
labeling surface...
1744 labels changed using aseg
relabeling using gibbs priors...
000:   3018 changed, 152355 examined...
001:    720 changed, 12983 examined...
002:    191 changed, 4085 examined...
003:     62 changed, 1131 examined...
004:     26 changed, 369 examined...
005:     12 changed, 171 examined...
006:      5 changed, 62 examined...
007:      3 changed, 28 examined...
008:      2 changed, 22 examined...
009:      0 changed, 13 examined...
133 labels changed using aseg
000: 111 total segments, 74 labels (427 vertices) changed
001: 39 total segments, 2 labels (3 vertices) changed
002: 37 total segments, 0 labels (0 vertices) changed
10 filter iterations complete (10 requested, 9 changed)
rationalizing unknown annotations with cortex label
relabeling unknown label...
relabeling corpuscallosum label...
2380 vertices marked for relabeling...
2380 labels changed in reclassification.
writing output to ../label/rh.aparc.annot...
classification took 0 minutes and 26 seconds.
#--------------------------------------------
#@# Make Pial Surf lh Thu Jan  9 09:36:47 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 066 lh

using white.preaparc starting white location...
using white.preaparc starting pial locations...
using aseg volume ../mri/aseg.presurf to prevent surfaces crossing the midline
INFO: assuming MGZ format for volumes.
using brain.finalsurfs as T1 volume...
$Id: mris_make_surfaces.c,v 1.164.2.4 2016/12/13 22:26:32 zkaufman Exp $
$Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/filled.mgz...
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/brain.finalsurfs.mgz...
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/../mri/aseg.presurf.mgz...
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/wm.mgz...
32301 bright wm thresholded.
4673 bright non-wm voxels segmented.
reading original surface position from /study2/emowrap/data/freesurfer/subjects/066/surf/lh.orig...
computing class statistics...
border white:    294484 voxels (1.76%)
border gray      333423 voxels (1.99%)
WM (96.0): 96.5 +- 9.0 [70.0 --> 110.0]
GM (70.0) : 67.9 +- 12.6 [30.0 --> 110.0]
setting MIN_GRAY_AT_WHITE_BORDER to 53.4 (was 70)
setting MAX_BORDER_WHITE to 110.0 (was 105)
setting MIN_BORDER_WHITE to 66.0 (was 85)
setting MAX_CSF to 40.7 (was 40)
setting MAX_GRAY to 92.0 (was 95)
setting MAX_GRAY_AT_CSF_BORDER to 53.4 (was 75)
setting MIN_GRAY_AT_CSF_BORDER to 28.1 (was 40)
using class modes intead of means, discounting robust sigmas....
intensity peaks found at WM=101+-8.7,    GM=66+-10.4
mean inside = 90.3, mean outside = 70.4
smoothing surface for 5 iterations...
reading initial white vertex positions from white.preaparc...
reading colortable from annotation file...
colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
repositioning cortical surface to gray/white boundary
smoothing T1 volume with sigma = 2.000
vertex spacing 0.90 +- 0.33 (0.02-->13.54) (max @ vno 142514 --> 142515)
face area 0.33 +- 0.22 (0.00-->12.39)
mean absolute distance = 0.90 +- 1.12
4098 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
inhibiting deformation at non-cortical midline structures...
deleting segment 0 with 42 points - only 0.00% unknown
deleting segment 1 with 115 points - only 0.00% unknown
deleting segment 2 with 5 points - only 0.00% unknown
deleting segment 3 with 81 points - only 0.00% unknown
removing 1 vertex label from ripped group
removing 2 vertex label from ripped group
deleting segment 7 with 23 points - only 0.00% unknown
deleting segment 8 with 323 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 9 with 2 points - only 0.00% unknown
deleting segment 10 with 84 points - only 0.00% unknown
deleting segment 11 with 45 points - only 0.00% unknown
deleting segment 12 with 31 points - only 0.00% unknown
deleting segment 13 with 59 points - only 0.00% unknown
deleting segment 14 with 7 points - only 0.00% unknown
deleting segment 15 with 14 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 16 with 2 points - only 0.00% unknown
deleting segment 17 with 173 points - only 0.00% unknown
deleting segment 18 with 9 points - only 0.00% unknown
deleting segment 19 with 61 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 20 with 2 points - only 0.00% unknown
mean border=78.4, 771 (766) missing vertices, mean dist 0.4 [1.8 (%13.8)->0.8 (%86.2))]
%38 local maxima, %56 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=2.0, host=c137., nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
complete_dist_mat 0
rms 0
smooth_averages 0
remove_neg 0
ico_order 0
which_surface 0
target_radius 0.000000
nfields 0
scale 0.000000
desired_rms_height 0.000000
momentum 0.000000
nbhd_size 0
max_nbrs 0
niterations 25
nsurfaces 0
SURFACES 3
flags 0 (0)
use curv 0
no sulc 0
no rigid align 0
mris->nsize 2
mris->hemisphere 0
randomSeed 0

smoothing T1 volume with sigma = 1.000
vertex spacing 0.91 +- 0.31 (0.04-->14.62) (max @ vno 142514 --> 142515)
face area 0.33 +- 0.22 (0.00-->14.94)
mean absolute distance = 0.50 +- 0.80
4943 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
000: dt: 0.0000, sse=3206635.8, rms=9.498
001: dt: 0.5000, sse=1737314.1, rms=6.065 (36.147%)
002: dt: 0.5000, sse=1314774.0, rms=4.666 (23.055%)
003: dt: 0.5000, sse=1242254.5, rms=4.371 (6.339%)
004: dt: 0.5000, sse=1186985.2, rms=4.150 (5.047%)
rms = 4.19, time step reduction 1 of 3 to 0.250...
005: dt: 0.2500, sse=1052190.8, rms=3.508 (15.474%)
006: dt: 0.2500, sse=1009176.8, rms=3.222 (8.147%)
007: dt: 0.2500, sse=984440.5, rms=3.122 (3.117%)
rms = 3.08, time step reduction 2 of 3 to 0.125...
008: dt: 0.2500, sse=980218.9, rms=3.076 (1.459%)
009: dt: 0.1250, sse=969800.9, rms=3.024 (1.710%)
rms = 3.00, time step reduction 3 of 3 to 0.062...
010: dt: 0.1250, sse=967001.6, rms=3.003 (0.693%)
positioning took 1.8 minutes
inhibiting deformation at non-cortical midline structures...
deleting segment 0 with 42 points - only 0.00% unknown
deleting segment 1 with 123 points - only 0.00% unknown
deleting segment 2 with 7 points - only 0.00% unknown
deleting segment 3 with 69 points - only 0.00% unknown
removing 1 vertex label from ripped group
deleting segment 4 with 1 points - only 0.00% unknown
deleting segment 6 with 19 points - only 0.00% unknown
deleting segment 7 with 187 points - only 0.00% unknown
removing 1 vertex label from ripped group
deleting segment 9 with 1 points - only 0.00% unknown
removing 3 vertex label from ripped group
deleting segment 11 with 28 points - only 0.00% unknown
deleting segment 12 with 69 points - only 0.00% unknown
removing 3 vertex label from ripped group
deleting segment 13 with 3 points - only 0.00% unknown
deleting segment 14 with 5 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 15 with 2 points - only 0.00% unknown
deleting segment 16 with 63 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 17 with 2 points - only 0.00% unknown
deleting segment 18 with 149 points - only 0.00% unknown
deleting segment 19 with 10 points - only 0.00% unknown
deleting segment 20 with 6 points - only 0.00% unknown
deleting segment 21 with 30 points - only 0.00% unknown
mean border=82.2, 610 (385) missing vertices, mean dist -0.3 [0.6 (%69.2)->0.2 (%30.8))]
%59 local maxima, %36 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=1.0, host=c137., nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 0.500
vertex spacing 0.90 +- 0.31 (0.05-->15.31) (max @ vno 142514 --> 142515)
face area 0.35 +- 0.24 (0.00-->19.19)
mean absolute distance = 0.35 +- 0.53
4633 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
000: dt: 0.0000, sse=1732202.6, rms=5.952
011: dt: 0.5000, sse=1310238.8, rms=4.444 (25.339%)
012: dt: 0.5000, sse=1260655.1, rms=4.268 (3.957%)
013: dt: 0.5000, sse=1235270.9, rms=4.165 (2.419%)
rms = 4.25, time step reduction 1 of 3 to 0.250...
014: dt: 0.2500, sse=1083061.9, rms=3.441 (17.375%)
015: dt: 0.2500, sse=1031439.9, rms=3.129 (9.071%)
016: dt: 0.2500, sse=1013952.9, rms=3.035 (3.020%)
rms = 2.99, time step reduction 2 of 3 to 0.125...
017: dt: 0.2500, sse=1011531.4, rms=2.991 (1.422%)
018: dt: 0.1250, sse=997619.0, rms=2.934 (1.905%)
rms = 2.92, time step reduction 3 of 3 to 0.062...
019: dt: 0.1250, sse=1011984.3, rms=2.918 (0.542%)
positioning took 1.6 minutes
inhibiting deformation at non-cortical midline structures...
deleting segment 0 with 46 points - only 0.00% unknown
deleting segment 1 with 119 points - only 0.00% unknown
deleting segment 2 with 7 points - only 0.00% unknown
deleting segment 3 with 72 points - only 0.00% unknown
removing 1 vertex label from ripped group
deleting segment 5 with 19 points - only 0.00% unknown
deleting segment 6 with 211 points - only 0.00% unknown
removing 1 vertex label from ripped group
deleting segment 7 with 1 points - only 0.00% unknown
removing 3 vertex label from ripped group
deleting segment 9 with 27 points - only 0.00% unknown
deleting segment 10 with 72 points - only 0.00% unknown
deleting segment 11 with 6 points - only 0.00% unknown
deleting segment 12 with 12 points - only 16.67% unknown
deleting segment 13 with 69 points - only 0.00% unknown
deleting segment 14 with 9 points - only 0.00% unknown
removing 3 vertex label from ripped group
deleting segment 15 with 3 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 16 with 2 points - only 0.00% unknown
deleting segment 17 with 156 points - only 0.00% unknown
deleting segment 18 with 11 points - only 0.00% unknown
deleting segment 19 with 35 points - only 0.00% unknown
removing 4 vertex label from ripped group
deleting segment 20 with 4 points - only 0.00% unknown
mean border=85.0, 657 (297) missing vertices, mean dist -0.2 [0.4 (%70.3)->0.2 (%29.7))]
%76 local maxima, %18 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=0.5, host=c137., nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 0.250
vertex spacing 0.89 +- 0.31 (0.05-->15.31) (max @ vno 142514 --> 142515)
face area 0.34 +- 0.24 (0.00-->20.22)
mean absolute distance = 0.27 +- 0.43
4445 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
000: dt: 0.0000, sse=1423722.1, rms=4.944
020: dt: 0.5000, sse=1193687.5, rms=4.023 (18.624%)
rms = 4.16, time step reduction 1 of 3 to 0.250...
021: dt: 0.2500, sse=1066640.9, rms=3.430 (14.731%)
022: dt: 0.2500, sse=1014457.8, rms=3.167 (7.678%)
023: dt: 0.2500, sse=1006052.1, rms=3.083 (2.638%)
rms = 3.06, time step reduction 2 of 3 to 0.125...
024: dt: 0.2500, sse=1005446.2, rms=3.064 (0.637%)
025: dt: 0.1250, sse=982784.4, rms=3.001 (2.054%)
rms = 2.99, time step reduction 3 of 3 to 0.062...
026: dt: 0.1250, sse=979664.6, rms=2.987 (0.453%)
positioning took 1.3 minutes
inhibiting deformation at non-cortical midline structures...
deleting segment 0 with 40 points - only 0.00% unknown
deleting segment 1 with 122 points - only 0.00% unknown
deleting segment 2 with 7 points - only 0.00% unknown
deleting segment 3 with 72 points - only 0.00% unknown
removing 1 vertex label from ripped group
deleting segment 5 with 17 points - only 0.00% unknown
deleting segment 6 with 255 points - only 0.00% unknown
removing 3 vertex label from ripped group
deleting segment 8 with 28 points - only 0.00% unknown
deleting segment 9 with 72 points - only 0.00% unknown
deleting segment 10 with 7 points - only 0.00% unknown
deleting segment 11 with 68 points - only 0.00% unknown
deleting segment 12 with 12 points - only 0.00% unknown
removing 3 vertex label from ripped group
deleting segment 13 with 3 points - only 0.00% unknown
deleting segment 14 with 12 points - only 0.00% unknown
deleting segment 15 with 157 points - only 0.00% unknown
deleting segment 16 with 11 points - only 0.00% unknown
deleting segment 17 with 39 points - only 0.00% unknown
deleting segment 18 with 12 points - only 0.00% unknown
removing 4 vertex label from ripped group
deleting segment 19 with 4 points - only 0.00% unknown
mean border=85.9, 707 (258) missing vertices, mean dist -0.1 [0.3 (%57.2)->0.2 (%42.8))]
%82 local maxima, %13 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=0.2, host=c137., nav=0, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
writing white matter surface to /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white...
writing smoothed curvature to lh.curv
000: dt: 0.0000, sse=1047513.9, rms=3.412
rms = 3.42, time step reduction 1 of 3 to 0.250...
027: dt: 0.2500, sse=987052.2, rms=3.090 (9.436%)
028: dt: 0.2500, sse=968122.1, rms=2.923 (5.410%)
rms = 2.93, time step reduction 2 of 3 to 0.125...
rms = 2.91, time step reduction 3 of 3 to 0.062...
029: dt: 0.1250, sse=957592.6, rms=2.910 (0.444%)
positioning took 0.7 minutes
generating cortex label...
15 non-cortical segments detected
only using segment with 7489 vertices
erasing segment 1 (vno[0] = 52467)
erasing segment 2 (vno[0] = 53550)
erasing segment 3 (vno[0] = 80532)
erasing segment 4 (vno[0] = 88100)
erasing segment 5 (vno[0] = 98591)
erasing segment 6 (vno[0] = 98859)
erasing segment 7 (vno[0] = 101112)
erasing segment 8 (vno[0] = 101149)
erasing segment 9 (vno[0] = 103488)
erasing segment 10 (vno[0] = 103603)
erasing segment 11 (vno[0] = 104755)
erasing segment 12 (vno[0] = 105682)
erasing segment 13 (vno[0] = 119983)
erasing segment 14 (vno[0] = 143515)
writing cortex label to /study2/emowrap/data/freesurfer/subjects/066/label/lh.cortex.label...
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/lh.curv
writing smoothed area to lh.area
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/lh.area
vertex spacing 0.90 +- 0.34 (0.02-->15.31) (max @ vno 142514 --> 142515)
face area 0.34 +- 0.23 (0.00-->19.74)
repositioning cortical surface to gray/csf boundary.
smoothing T1 volume with sigma = 2.000
averaging target values for 5 iterations...
inhibiting deformation at non-cortical midline structures...
removing 1 vertex label from ripped group
deleting segment 1 with 1 points - only 0.00% unknown
removing 3 vertex label from ripped group
deleting segment 4 with 5 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 5 with 2 points - only 0.00% unknown
deleting segment 6 with 23 points - only 0.00% unknown
deleting segment 7 with 23 points - only 0.00% unknown
deleting segment 8 with 8 points - only 0.00% unknown
deleting segment 9 with 19 points - only 0.00% unknown
smoothing surface for 5 iterations...
reading initial pial vertex positions from white.preaparc...
mean border=50.3, 748 (748) missing vertices, mean dist 1.9 [2.6 (%0.4)->2.4 (%99.6))]
%18 local maxima, %59 large gradients and %18 min vals, 83 gradients ignored
perforing initial smooth deformation to move away from white surface
tol=1.0e-04, sigma=2.0, host=c137., nav=16, nbrs=2, l_surf_repulse=1.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.05
000: dt: 0.0000, sse=36734388.0, rms=36.105
001: dt: 0.0500, sse=32796112.0, rms=34.074 (5.626%)
002: dt: 0.0500, sse=30003848.0, rms=32.557 (4.452%)
003: dt: 0.0500, sse=27862246.0, rms=31.344 (3.726%)
004: dt: 0.0500, sse=26124170.0, rms=30.324 (3.255%)
005: dt: 0.0500, sse=24660260.0, rms=29.437 (2.924%)
006: dt: 0.0500, sse=23386848.0, rms=28.644 (2.696%)
007: dt: 0.0500, sse=22253864.0, rms=27.918 (2.531%)
008: dt: 0.0500, sse=21231906.0, rms=27.248 (2.402%)
009: dt: 0.0500, sse=20298704.0, rms=26.621 (2.302%)
010: dt: 0.0500, sse=19439388.0, rms=26.030 (2.220%)
positioning took 1.6 minutes
mean border=50.1, 587 (441) missing vertices, mean dist 1.5 [1.5 (%0.7)->1.8 (%99.3))]
%19 local maxima, %59 large gradients and %18 min vals, 75 gradients ignored
tol=1.0e-04, sigma=2.0, host=c137., nav=16, nbrs=2, l_surf_repulse=1.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.05
000: dt: 0.0000, sse=20402260.0, rms=26.668
011: dt: 0.0500, sse=19594416.0, rms=26.115 (2.073%)
012: dt: 0.0500, sse=18843474.0, rms=25.590 (2.009%)
013: dt: 0.0500, sse=18142040.0, rms=25.090 (1.954%)
014: dt: 0.0500, sse=17486406.0, rms=24.613 (1.900%)
015: dt: 0.0500, sse=16872924.0, rms=24.159 (1.847%)
016: dt: 0.0500, sse=16297762.0, rms=23.724 (1.797%)
017: dt: 0.0500, sse=15757735.0, rms=23.309 (1.750%)
018: dt: 0.0500, sse=15250311.0, rms=22.912 (1.703%)
019: dt: 0.0500, sse=14772795.0, rms=22.532 (1.658%)
020: dt: 0.0500, sse=14322993.0, rms=22.168 (1.615%)
positioning took 1.6 minutes
mean border=49.9, 566 (363) missing vertices, mean dist 1.2 [0.5 (%2.2)->1.5 (%97.8))]
%19 local maxima, %59 large gradients and %17 min vals, 61 gradients ignored
tol=1.0e-04, sigma=2.0, host=c137., nav=16, nbrs=2, l_surf_repulse=1.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.05
000: dt: 0.0000, sse=14479770.0, rms=22.295
021: dt: 0.0500, sse=14031301.0, rms=21.929 (1.644%)
022: dt: 0.0500, sse=13610598.0, rms=21.579 (1.594%)
023: dt: 0.0500, sse=13207284.0, rms=21.238 (1.579%)
024: dt: 0.0500, sse=12826258.0, rms=20.911 (1.539%)
025: dt: 0.0500, sse=12467018.0, rms=20.598 (1.497%)
026: dt: 0.0500, sse=12129354.0, rms=20.300 (1.450%)
027: dt: 0.0500, sse=11804412.0, rms=20.008 (1.437%)
028: dt: 0.0500, sse=11488099.0, rms=19.720 (1.440%)
029: dt: 0.0500, sse=11180710.0, rms=19.436 (1.441%)
030: dt: 0.0500, sse=10882888.0, rms=19.156 (1.438%)
positioning took 1.6 minutes
mean border=49.8, 598 (318) missing vertices, mean dist 0.9 [0.2 (%12.3)->1.3 (%87.7))]
%19 local maxima, %59 large gradients and %17 min vals, 53 gradients ignored
tol=1.0e-04, sigma=2.0, host=c137., nav=16, nbrs=2, l_surf_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 1.000
averaging target values for 5 iterations...
000: dt: 0.0000, sse=11066613.0, rms=19.324
031: dt: 0.5000, sse=9024221.0, rms=17.312 (10.413%)
032: dt: 0.5000, sse=7456429.0, rms=15.584 (9.985%)
033: dt: 0.5000, sse=6187695.0, rms=14.037 (9.926%)
034: dt: 0.5000, sse=5130273.5, rms=12.593 (10.289%)
035: dt: 0.5000, sse=4323688.5, rms=11.375 (9.668%)
036: dt: 0.5000, sse=3656213.0, rms=10.251 (9.880%)
037: dt: 0.5000, sse=3167630.0, rms=9.350 (8.789%)
038: dt: 0.5000, sse=2790422.0, rms=8.583 (8.209%)
039: dt: 0.5000, sse=2571708.2, rms=8.112 (5.490%)
040: dt: 0.5000, sse=2407593.0, rms=7.731 (4.694%)
041: dt: 0.5000, sse=2331513.5, rms=7.554 (2.283%)
042: dt: 0.5000, sse=2265939.0, rms=7.390 (2.181%)
rms = 7.35, time step reduction 1 of 3 to 0.250...
043: dt: 0.5000, sse=2249929.8, rms=7.354 (0.485%)
044: dt: 0.2500, sse=1876934.4, rms=6.321 (14.039%)
045: dt: 0.2500, sse=1767028.1, rms=6.002 (5.046%)
rms = 6.04, time step reduction 2 of 3 to 0.125...
046: dt: 0.1250, sse=1704636.9, rms=5.805 (3.288%)
047: dt: 0.1250, sse=1622554.2, rms=5.533 (4.685%)
048: dt: 0.1250, sse=1606305.2, rms=5.477 (1.003%)
rms = 5.47, time step reduction 3 of 3 to 0.062...
049: dt: 0.1250, sse=1603329.4, rms=5.467 (0.198%)
positioning took 3.7 minutes
mean border=47.9, 1880 (208) missing vertices, mean dist 0.1 [0.1 (%45.6)->0.4 (%54.4))]
%36 local maxima, %42 large gradients and %17 min vals, 49 gradients ignored
tol=1.0e-04, sigma=1.0, host=c137., nav=8, nbrs=2, l_surf_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 0.500
averaging target values for 5 iterations...
000: dt: 0.0000, sse=2100757.0, rms=6.392
rms = 7.07, time step reduction 1 of 3 to 0.250...
050: dt: 0.2500, sse=1831727.8, rms=5.564 (12.960%)
051: dt: 0.2500, sse=1755667.4, rms=5.302 (4.702%)
rms = 5.38, time step reduction 2 of 3 to 0.125...
052: dt: 0.1250, sse=1701227.1, rms=5.107 (3.673%)
053: dt: 0.1250, sse=1629192.6, rms=4.841 (5.217%)
054: dt: 0.1250, sse=1603026.2, rms=4.742 (2.049%)
055: dt: 0.1250, sse=1588982.1, rms=4.689 (1.119%)
rms = 4.67, time step reduction 3 of 3 to 0.062...
056: dt: 0.1250, sse=1583838.8, rms=4.671 (0.385%)
positioning took 1.7 minutes
mean border=46.5, 2062 (178) missing vertices, mean dist 0.1 [0.1 (%47.4)->0.3 (%52.6))]
%51 local maxima, %27 large gradients and %16 min vals, 34 gradients ignored
tol=1.0e-04, sigma=0.5, host=c137., nav=4, nbrs=2, l_surf_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 0.250
averaging target values for 5 iterations...
000: dt: 0.0000, sse=1728472.1, rms=5.219
rms = 6.52, time step reduction 1 of 3 to 0.250...
057: dt: 0.2500, sse=1610769.4, rms=4.788 (8.253%)
058: dt: 0.2500, sse=1594492.5, rms=4.728 (1.242%)
rms = 4.86, time step reduction 2 of 3 to 0.125...
059: dt: 0.1250, sse=1570511.8, rms=4.633 (2.015%)
060: dt: 0.1250, sse=1542120.1, rms=4.522 (2.402%)
061: dt: 0.1250, sse=1528857.1, rms=4.470 (1.148%)
rms = 4.44, time step reduction 3 of 3 to 0.062...
062: dt: 0.1250, sse=1520417.6, rms=4.438 (0.715%)
positioning took 1.5 minutes
mean border=45.5, 3063 (171) missing vertices, mean dist 0.1 [0.1 (%50.0)->0.2 (%50.0))]
%55 local maxima, %23 large gradients and %16 min vals, 38 gradients ignored
tol=1.0e-04, sigma=0.2, host=c137., nav=2, nbrs=2, l_surf_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
writing pial surface to /study2/emowrap/data/freesurfer/subjects/066/surf/lh.pial...
writing smoothed curvature to lh.curv.pial
000: dt: 0.0000, sse=1568163.5, rms=4.632
rms = 5.87, time step reduction 1 of 3 to 0.250...
063: dt: 0.2500, sse=1513845.5, rms=4.410 (4.800%)
rms = 4.39, time step reduction 2 of 3 to 0.125...
064: dt: 0.2500, sse=1506527.1, rms=4.390 (0.436%)
065: dt: 0.1250, sse=1476696.8, rms=4.262 (2.917%)
066: dt: 0.1250, sse=1459238.6, rms=4.191 (1.670%)
rms = 4.18, time step reduction 3 of 3 to 0.062...
067: dt: 0.1250, sse=1455150.4, rms=4.177 (0.342%)
positioning took 1.2 minutes
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/lh.curv.pial
writing smoothed area to lh.area.pial
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/lh.area.pial
vertex spacing 1.01 +- 0.44 (0.10-->9.80) (max @ vno 143554 --> 143518)
face area 0.41 +- 0.34 (0.00-->11.13)
measuring cortical thickness...
writing cortical thickness estimate to 'thickness' file.
0 of 144925 vertices processed
25000 of 144925 vertices processed
50000 of 144925 vertices processed
75000 of 144925 vertices processed
100000 of 144925 vertices processed
125000 of 144925 vertices processed
0 of 144925 vertices processed
25000 of 144925 vertices processed
50000 of 144925 vertices processed
75000 of 144925 vertices processed
100000 of 144925 vertices processed
125000 of 144925 vertices processed
thickness calculation complete, 83:362 truncations.
49290 vertices at 0 distance
114281 vertices at 1 distance
76725 vertices at 2 distance
26581 vertices at 3 distance
7438 vertices at 4 distance
1997 vertices at 5 distance
657 vertices at 6 distance
283 vertices at 7 distance
150 vertices at 8 distance
70 vertices at 9 distance
54 vertices at 10 distance
26 vertices at 11 distance
18 vertices at 12 distance
11 vertices at 13 distance
7 vertices at 14 distance
19 vertices at 15 distance
17 vertices at 16 distance
15 vertices at 17 distance
8 vertices at 18 distance
12 vertices at 19 distance
5 vertices at 20 distance
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/lh.thickness
positioning took 24.5 minutes
#--------------------------------------------
#@# Make Pial Surf rh Thu Jan  9 10:01:16 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 066 rh

using white.preaparc starting white location...
using white.preaparc starting pial locations...
using aseg volume ../mri/aseg.presurf to prevent surfaces crossing the midline
INFO: assuming MGZ format for volumes.
using brain.finalsurfs as T1 volume...
$Id: mris_make_surfaces.c,v 1.164.2.4 2016/12/13 22:26:32 zkaufman Exp $
$Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/filled.mgz...
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/brain.finalsurfs.mgz...
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/../mri/aseg.presurf.mgz...
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/wm.mgz...
32301 bright wm thresholded.
4673 bright non-wm voxels segmented.
reading original surface position from /study2/emowrap/data/freesurfer/subjects/066/surf/rh.orig...
computing class statistics...
border white:    294484 voxels (1.76%)
border gray      333423 voxels (1.99%)
WM (96.0): 96.5 +- 9.0 [70.0 --> 110.0]
GM (70.0) : 67.9 +- 12.6 [30.0 --> 110.0]
setting MIN_GRAY_AT_WHITE_BORDER to 55.4 (was 70)
setting MAX_BORDER_WHITE to 110.0 (was 105)
setting MIN_BORDER_WHITE to 68.0 (was 85)
setting MAX_CSF to 42.7 (was 40)
setting MAX_GRAY to 92.0 (was 95)
setting MAX_GRAY_AT_CSF_BORDER to 55.4 (was 75)
setting MIN_GRAY_AT_CSF_BORDER to 30.1 (was 40)
using class modes intead of means, discounting robust sigmas....
intensity peaks found at WM=101+-8.7,    GM=68+-11.3
mean inside = 91.4, mean outside = 71.1
smoothing surface for 5 iterations...
reading initial white vertex positions from white.preaparc...
reading colortable from annotation file...
colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
repositioning cortical surface to gray/white boundary
smoothing T1 volume with sigma = 2.000
vertex spacing 0.88 +- 0.27 (0.04-->4.96) (max @ vno 151752 --> 151796)
face area 0.33 +- 0.17 (0.00-->5.40)
mean absolute distance = 0.85 +- 1.11
4376 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
inhibiting deformation at non-cortical midline structures...
deleting segment 0 with 29 points - only 0.00% unknown
removing 3 vertex label from ripped group
deleting segment 2 with 3 points - only 0.00% unknown
deleting segment 4 with 10 points - only 0.00% unknown
deleting segment 6 with 286 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 7 with 2 points - only 0.00% unknown
removing 3 vertex label from ripped group
deleting segment 8 with 3 points - only 0.00% unknown
deleting segment 9 with 7 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 10 with 2 points - only 0.00% unknown
deleting segment 11 with 6 points - only 0.00% unknown
deleting segment 12 with 16 points - only 0.00% unknown
deleting segment 13 with 26 points - only 0.00% unknown
deleting segment 14 with 9 points - only 0.00% unknown
removing 4 vertex label from ripped group
deleting segment 15 with 4 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 16 with 2 points - only 0.00% unknown
deleting segment 17 with 9 points - only 0.00% unknown
mean border=80.0, 484 (483) missing vertices, mean dist 0.3 [1.6 (%15.5)->0.7 (%84.5))]
%37 local maxima, %59 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=2.0, host=c137., nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
complete_dist_mat 0
rms 0
smooth_averages 0
remove_neg 0
ico_order 0
which_surface 0
target_radius 0.000000
nfields 0
scale 0.000000
desired_rms_height 0.000000
momentum 0.000000
nbhd_size 0
max_nbrs 0
niterations 25
nsurfaces 0
SURFACES 3
flags 0 (0)
use curv 0
no sulc 0
no rigid align 0
mris->nsize 2
mris->hemisphere 1
randomSeed 0

smoothing T1 volume with sigma = 1.000
vertex spacing 0.90 +- 0.26 (0.08-->4.98) (max @ vno 151752 --> 151796)
face area 0.33 +- 0.17 (0.00-->5.62)
mean absolute distance = 0.47 +- 0.77
5442 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
000: dt: 0.0000, sse=2770233.2, rms=8.343
001: dt: 0.5000, sse=1462076.4, rms=5.002 (40.040%)
002: dt: 0.5000, sse=1133716.4, rms=3.706 (25.914%)
003: dt: 0.5000, sse=1079221.2, rms=3.512 (5.242%)
004: dt: 0.5000, sse=1064194.8, rms=3.314 (5.626%)
rms = 3.43, time step reduction 1 of 3 to 0.250...
005: dt: 0.2500, sse=895947.9, rms=2.406 (27.403%)
006: dt: 0.2500, sse=841252.1, rms=1.990 (17.297%)
007: dt: 0.2500, sse=826763.9, rms=1.859 (6.580%)
rms = 1.83, time step reduction 2 of 3 to 0.125...
008: dt: 0.2500, sse=822246.8, rms=1.830 (1.561%)
009: dt: 0.1250, sse=818392.7, rms=1.745 (4.613%)
rms = 1.73, time step reduction 3 of 3 to 0.062...
010: dt: 0.1250, sse=812353.1, rms=1.728 (1.022%)
positioning took 1.9 minutes
inhibiting deformation at non-cortical midline structures...
deleting segment 0 with 39 points - only 0.00% unknown
removing 3 vertex label from ripped group
deleting segment 1 with 3 points - only 0.00% unknown
removing 3 vertex label from ripped group
deleting segment 3 with 10 points - only 0.00% unknown
deleting segment 4 with 228 points - only 0.00% unknown
deleting segment 5 with 9 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 6 with 2 points - only 0.00% unknown
deleting segment 7 with 10 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 8 with 2 points - only 0.00% unknown
removing 4 vertex label from ripped group
deleting segment 9 with 4 points - only 0.00% unknown
deleting segment 10 with 17 points - only 0.00% unknown
deleting segment 11 with 9 points - only 0.00% unknown
removing 4 vertex label from ripped group
deleting segment 12 with 4 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 13 with 2 points - only 0.00% unknown
removing 4 vertex label from ripped group
deleting segment 14 with 4 points - only 0.00% unknown
mean border=83.3, 265 (86) missing vertices, mean dist -0.3 [0.6 (%67.2)->0.2 (%32.8))]
%58 local maxima, %38 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=1.0, host=c137., nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 0.500
vertex spacing 0.89 +- 0.26 (0.04-->4.95) (max @ vno 151752 --> 151796)
face area 0.34 +- 0.18 (0.00-->5.81)
mean absolute distance = 0.34 +- 0.51
5098 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
000: dt: 0.0000, sse=1460041.9, rms=4.891
011: dt: 0.5000, sse=1106175.0, rms=3.351 (31.479%)
rms = 3.32, time step reduction 1 of 3 to 0.250...
012: dt: 0.5000, sse=1092871.1, rms=3.320 (0.938%)
013: dt: 0.2500, sse=911451.9, rms=2.059 (37.971%)
014: dt: 0.2500, sse=860515.6, rms=1.734 (15.800%)
015: dt: 0.2500, sse=851818.9, rms=1.653 (4.662%)
016: dt: 0.2500, sse=844269.2, rms=1.585 (4.127%)
rms = 1.57, time step reduction 2 of 3 to 0.125...
017: dt: 0.2500, sse=842829.0, rms=1.575 (0.618%)
018: dt: 0.1250, sse=848975.9, rms=1.469 (6.746%)
rms = 1.45, time step reduction 3 of 3 to 0.062...
019: dt: 0.1250, sse=824845.8, rms=1.454 (0.984%)
positioning took 1.5 minutes
inhibiting deformation at non-cortical midline structures...
deleting segment 0 with 40 points - only 0.00% unknown
removing 4 vertex label from ripped group
deleting segment 1 with 4 points - only 0.00% unknown
removing 3 vertex label from ripped group
deleting segment 3 with 8 points - only 0.00% unknown
deleting segment 4 with 227 points - only 0.00% unknown
deleting segment 5 with 8 points - only 0.00% unknown
deleting segment 6 with 32 points - only 0.00% unknown
deleting segment 7 with 10 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 8 with 2 points - only 0.00% unknown
removing 3 vertex label from ripped group
deleting segment 9 with 3 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 10 with 2 points - only 0.00% unknown
deleting segment 11 with 16 points - only 0.00% unknown
deleting segment 12 with 17 points - only 0.00% unknown
deleting segment 13 with 12 points - only 0.00% unknown
deleting segment 14 with 6 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 15 with 2 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 16 with 2 points - only 0.00% unknown
deleting segment 17 with 7 points - only 0.00% unknown
mean border=85.8, 295 (44) missing vertices, mean dist -0.2 [0.4 (%68.2)->0.2 (%31.8))]
%75 local maxima, %21 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=0.5, host=c137., nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 0.250
vertex spacing 0.88 +- 0.26 (0.04-->4.99) (max @ vno 60794 --> 58425)
face area 0.33 +- 0.17 (0.00-->5.45)
mean absolute distance = 0.27 +- 0.42
4732 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
000: dt: 0.0000, sse=1170320.2, rms=3.849
020: dt: 0.5000, sse=1024866.5, rms=2.953 (23.275%)
rms = 3.16, time step reduction 1 of 3 to 0.250...
021: dt: 0.2500, sse=877033.2, rms=2.079 (29.609%)
022: dt: 0.2500, sse=831714.6, rms=1.645 (20.884%)
023: dt: 0.2500, sse=819347.1, rms=1.524 (7.313%)
rms = 1.50, time step reduction 2 of 3 to 0.125...
024: dt: 0.2500, sse=812569.3, rms=1.497 (1.816%)
025: dt: 0.1250, sse=799321.9, rms=1.375 (8.115%)
rms = 1.36, time step reduction 3 of 3 to 0.062...
026: dt: 0.1250, sse=795111.7, rms=1.358 (1.225%)
positioning took 1.3 minutes
inhibiting deformation at non-cortical midline structures...
deleting segment 0 with 37 points - only 0.00% unknown
deleting segment 1 with 7 points - only 0.00% unknown
removing 3 vertex label from ripped group
deleting segment 3 with 8 points - only 0.00% unknown
deleting segment 4 with 227 points - only 0.00% unknown
removing 3 vertex label from ripped group
deleting segment 5 with 3 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 6 with 2 points - only 0.00% unknown
deleting segment 7 with 30 points - only 0.00% unknown
deleting segment 8 with 11 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 9 with 2 points - only 0.00% unknown
removing 3 vertex label from ripped group
deleting segment 10 with 3 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 11 with 2 points - only 0.00% unknown
deleting segment 12 with 20 points - only 0.00% unknown
deleting segment 13 with 19 points - only 0.00% unknown
deleting segment 14 with 6 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 15 with 2 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 16 with 2 points - only 0.00% unknown
deleting segment 17 with 7 points - only 0.00% unknown
mean border=86.6, 332 (31) missing vertices, mean dist -0.1 [0.3 (%55.4)->0.2 (%44.6))]
%80 local maxima, %16 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=0.2, host=c137., nav=0, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
writing white matter surface to /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white...
writing smoothed curvature to rh.curv
000: dt: 0.0000, sse=848953.0, rms=1.993
rms = 2.10, time step reduction 1 of 3 to 0.250...
027: dt: 0.2500, sse=791359.4, rms=1.443 (27.614%)
028: dt: 0.2500, sse=790785.8, rms=1.156 (19.857%)
rms = 1.20, time step reduction 2 of 3 to 0.125...
rms = 1.12, time step reduction 3 of 3 to 0.062...
029: dt: 0.1250, sse=770401.9, rms=1.120 (3.164%)
positioning took 0.8 minutes
generating cortex label...
16 non-cortical segments detected
only using segment with 7113 vertices
erasing segment 1 (vno[0] = 49424)
erasing segment 2 (vno[0] = 58232)
erasing segment 3 (vno[0] = 71886)
erasing segment 4 (vno[0] = 75347)
erasing segment 5 (vno[0] = 85972)
erasing segment 6 (vno[0] = 99175)
erasing segment 7 (vno[0] = 102731)
erasing segment 8 (vno[0] = 105203)
erasing segment 9 (vno[0] = 106204)
erasing segment 10 (vno[0] = 107297)
erasing segment 11 (vno[0] = 108327)
erasing segment 12 (vno[0] = 110473)
erasing segment 13 (vno[0] = 111400)
erasing segment 14 (vno[0] = 112216)
erasing segment 15 (vno[0] = 118452)
writing cortex label to /study2/emowrap/data/freesurfer/subjects/066/label/rh.cortex.label...
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/rh.curv
writing smoothed area to rh.area
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/rh.area
vertex spacing 0.88 +- 0.27 (0.05-->5.01) (max @ vno 58425 --> 60794)
face area 0.32 +- 0.17 (0.00-->5.29)
repositioning cortical surface to gray/csf boundary.
smoothing T1 volume with sigma = 2.000
averaging target values for 5 iterations...
inhibiting deformation at non-cortical midline structures...
removing 4 vertex label from ripped group
deleting segment 1 with 4 points - only 0.00% unknown
removing 1 vertex label from ripped group
removing 2 vertex label from ripped group
deleting segment 3 with 2 points - only 0.00% unknown
deleting segment 4 with 12 points - only 0.00% unknown
smoothing surface for 5 iterations...
reading initial pial vertex positions from white.preaparc...
mean border=52.5, 456 (456) missing vertices, mean dist 1.9 [1.3 (%0.1)->2.3 (%99.9))]
%19 local maxima, %59 large gradients and %18 min vals, 114 gradients ignored
perforing initial smooth deformation to move away from white surface
tol=1.0e-04, sigma=2.0, host=c137., nav=16, nbrs=2, l_surf_repulse=1.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.05
000: dt: 0.0000, sse=35647668.0, rms=34.584
001: dt: 0.0500, sse=31698588.0, rms=32.570 (5.823%)
002: dt: 0.0500, sse=28873452.0, rms=31.049 (4.669%)
003: dt: 0.0500, sse=26697710.0, rms=29.825 (3.943%)
004: dt: 0.0500, sse=24930412.0, rms=28.792 (3.462%)
005: dt: 0.0500, sse=23433234.0, rms=27.888 (3.142%)
006: dt: 0.0500, sse=22132122.0, rms=27.077 (2.908%)
007: dt: 0.0500, sse=20976876.0, rms=26.336 (2.736%)
008: dt: 0.0500, sse=19935302.0, rms=25.649 (2.606%)
009: dt: 0.0500, sse=18986264.0, rms=25.007 (2.502%)
010: dt: 0.0500, sse=18114194.0, rms=24.403 (2.418%)
positioning took 1.6 minutes
mean border=52.3, 261 (191) missing vertices, mean dist 1.5 [0.4 (%0.2)->1.8 (%99.8))]
%20 local maxima, %59 large gradients and %17 min vals, 114 gradients ignored
tol=1.0e-04, sigma=2.0, host=c137., nav=16, nbrs=2, l_surf_repulse=1.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.05
000: dt: 0.0000, sse=19092666.0, rms=25.063
011: dt: 0.0500, sse=18276434.0, rms=24.500 (2.247%)
012: dt: 0.0500, sse=17519670.0, rms=23.966 (2.180%)
013: dt: 0.0500, sse=16815808.0, rms=23.458 (2.118%)
014: dt: 0.0500, sse=16161664.0, rms=22.976 (2.055%)
015: dt: 0.0500, sse=15552775.0, rms=22.518 (1.993%)
016: dt: 0.0500, sse=14986420.0, rms=22.084 (1.930%)
017: dt: 0.0500, sse=14457728.0, rms=21.670 (1.873%)
018: dt: 0.0500, sse=13965666.0, rms=21.278 (1.810%)
019: dt: 0.0500, sse=13505337.0, rms=20.905 (1.756%)
020: dt: 0.0500, sse=13074106.0, rms=20.548 (1.704%)
positioning took 1.6 minutes
mean border=52.1, 241 (125) missing vertices, mean dist 1.2 [0.1 (%1.9)->1.4 (%98.1))]
%20 local maxima, %59 large gradients and %17 min vals, 124 gradients ignored
tol=1.0e-04, sigma=2.0, host=c137., nav=16, nbrs=2, l_surf_repulse=1.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.05
000: dt: 0.0000, sse=13264542.0, rms=20.707
021: dt: 0.0500, sse=12833514.0, rms=20.348 (1.735%)
022: dt: 0.0500, sse=12432622.0, rms=20.008 (1.671%)
023: dt: 0.0500, sse=12051145.0, rms=19.679 (1.645%)
024: dt: 0.0500, sse=11694808.0, rms=19.366 (1.588%)
025: dt: 0.0500, sse=11361367.0, rms=19.069 (1.534%)
026: dt: 0.0500, sse=11049836.0, rms=18.787 (1.478%)
027: dt: 0.0500, sse=10753070.0, rms=18.514 (1.451%)
028: dt: 0.0500, sse=10463854.0, rms=18.245 (1.456%)
029: dt: 0.0500, sse=10182975.0, rms=17.979 (1.457%)
030: dt: 0.0500, sse=9910819.0, rms=17.718 (1.454%)
positioning took 1.6 minutes
mean border=52.0, 269 (103) missing vertices, mean dist 0.9 [0.1 (%13.6)->1.3 (%86.4))]
%21 local maxima, %59 large gradients and %16 min vals, 88 gradients ignored
tol=1.0e-04, sigma=2.0, host=c137., nav=16, nbrs=2, l_surf_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 1.000
averaging target values for 5 iterations...
000: dt: 0.0000, sse=10112906.0, rms=17.908
031: dt: 0.5000, sse=8202909.0, rms=15.983 (10.751%)
032: dt: 0.5000, sse=6744094.0, rms=14.329 (10.349%)
033: dt: 0.5000, sse=5582985.5, rms=12.871 (10.177%)
034: dt: 0.5000, sse=4611028.0, rms=11.496 (10.683%)
035: dt: 0.5000, sse=3888303.0, rms=10.364 (9.844%)
036: dt: 0.5000, sse=3269020.0, rms=9.274 (10.520%)
037: dt: 0.5000, sse=2832931.2, rms=8.433 (9.072%)
038: dt: 0.5000, sse=2509683.0, rms=7.738 (8.232%)
039: dt: 0.5000, sse=2343432.5, rms=7.365 (4.824%)
040: dt: 0.5000, sse=2222115.8, rms=7.069 (4.025%)
041: dt: 0.5000, sse=2182532.0, rms=6.976 (1.305%)
042: dt: 0.5000, sse=2120812.8, rms=6.815 (2.315%)
rms = 6.81, time step reduction 1 of 3 to 0.250...
043: dt: 0.5000, sse=2116562.2, rms=6.809 (0.079%)
044: dt: 0.2500, sse=1730934.1, rms=5.704 (16.231%)
045: dt: 0.2500, sse=1619485.8, rms=5.363 (5.981%)
rms = 5.40, time step reduction 2 of 3 to 0.125...
046: dt: 0.1250, sse=1558665.6, rms=5.159 (3.809%)
047: dt: 0.1250, sse=1479497.9, rms=4.878 (5.436%)
048: dt: 0.1250, sse=1458878.4, rms=4.803 (1.545%)
rms = 4.79, time step reduction 3 of 3 to 0.062...
049: dt: 0.1250, sse=1456500.1, rms=4.793 (0.204%)
positioning took 3.8 minutes
mean border=49.9, 1680 (57) missing vertices, mean dist 0.1 [0.1 (%43.3)->0.4 (%56.7))]
%39 local maxima, %39 large gradients and %16 min vals, 39 gradients ignored
tol=1.0e-04, sigma=1.0, host=c137., nav=8, nbrs=2, l_surf_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 0.500
averaging target values for 5 iterations...
000: dt: 0.0000, sse=2016076.2, rms=5.979
rms = 6.47, time step reduction 1 of 3 to 0.250...
050: dt: 0.2500, sse=1731099.4, rms=5.083 (14.987%)
051: dt: 0.2500, sse=1609757.2, rms=4.644 (8.634%)
rms = 4.68, time step reduction 2 of 3 to 0.125...
052: dt: 0.1250, sse=1556670.0, rms=4.438 (4.432%)
053: dt: 0.1250, sse=1482300.8, rms=4.136 (6.808%)
054: dt: 0.1250, sse=1452390.1, rms=4.010 (3.058%)
rms = 3.96, time step reduction 3 of 3 to 0.062...
055: dt: 0.1250, sse=1440597.8, rms=3.960 (1.245%)
positioning took 1.5 minutes
mean border=48.1, 1871 (55) missing vertices, mean dist 0.1 [0.1 (%43.4)->0.3 (%56.6))]
%54 local maxima, %25 large gradients and %16 min vals, 46 gradients ignored
tol=1.0e-04, sigma=0.5, host=c137., nav=4, nbrs=2, l_surf_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 0.250
averaging target values for 5 iterations...
000: dt: 0.0000, sse=1664707.6, rms=4.855
rms = 6.03, time step reduction 1 of 3 to 0.250...
056: dt: 0.2500, sse=1513235.2, rms=4.281 (11.826%)
057: dt: 0.2500, sse=1474559.8, rms=4.122 (3.706%)
rms = 4.21, time step reduction 2 of 3 to 0.125...
058: dt: 0.1250, sse=1447426.6, rms=4.005 (2.844%)
059: dt: 0.1250, sse=1411968.6, rms=3.850 (3.862%)
060: dt: 0.1250, sse=1393790.0, rms=3.769 (2.095%)
rms = 3.73, time step reduction 3 of 3 to 0.062...
061: dt: 0.1250, sse=1385636.1, rms=3.733 (0.951%)
positioning took 1.6 minutes
mean border=47.1, 2890 (53) missing vertices, mean dist 0.1 [0.1 (%47.5)->0.2 (%52.5))]
%57 local maxima, %22 large gradients and %16 min vals, 60 gradients ignored
tol=1.0e-04, sigma=0.2, host=c137., nav=2, nbrs=2, l_surf_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
writing pial surface to /study2/emowrap/data/freesurfer/subjects/066/surf/rh.pial...
writing smoothed curvature to rh.curv.pial
000: dt: 0.0000, sse=1443523.8, rms=3.998
rms = 5.33, time step reduction 1 of 3 to 0.250...
062: dt: 0.2500, sse=1384661.0, rms=3.731 (6.682%)
rms = 3.69, time step reduction 2 of 3 to 0.125...
063: dt: 0.2500, sse=1373757.4, rms=3.690 (1.087%)
064: dt: 0.1250, sse=1344218.6, rms=3.546 (3.914%)
065: dt: 0.1250, sse=1326714.0, rms=3.464 (2.311%)
rms = 3.44, time step reduction 3 of 3 to 0.062...
066: dt: 0.1250, sse=1320964.8, rms=3.439 (0.730%)
positioning took 1.3 minutes
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/rh.curv.pial
writing smoothed area to rh.area.pial
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/rh.area.pial
vertex spacing 0.99 +- 0.42 (0.06-->8.31) (max @ vno 61032 --> 150856)
face area 0.39 +- 0.30 (0.00-->6.74)
measuring cortical thickness...
writing cortical thickness estimate to 'thickness' file.
0 of 152355 vertices processed
25000 of 152355 vertices processed
50000 of 152355 vertices processed
75000 of 152355 vertices processed
100000 of 152355 vertices processed
125000 of 152355 vertices processed
150000 of 152355 vertices processed
0 of 152355 vertices processed
25000 of 152355 vertices processed
50000 of 152355 vertices processed
75000 of 152355 vertices processed
100000 of 152355 vertices processed
125000 of 152355 vertices processed
150000 of 152355 vertices processed
thickness calculation complete, 80:446 truncations.
53419 vertices at 0 distance
123253 vertices at 1 distance
78354 vertices at 2 distance
26880 vertices at 3 distance
7653 vertices at 4 distance
2194 vertices at 5 distance
693 vertices at 6 distance
212 vertices at 7 distance
93 vertices at 8 distance
38 vertices at 9 distance
21 vertices at 10 distance
17 vertices at 11 distance
11 vertices at 12 distance
1 vertices at 13 distance
3 vertices at 14 distance
7 vertices at 15 distance
8 vertices at 16 distance
9 vertices at 17 distance
9 vertices at 18 distance
6 vertices at 19 distance
3 vertices at 20 distance
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/rh.thickness
positioning took 25.0 minutes
#--------------------------------------------
#@# Surf Volume lh Thu Jan  9 10:26:14 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/surf
/study2/emowrap/data/freesurfer/subjects/066/surf
mris_calc -o lh.area.mid lh.area add lh.area.pial
Saving result to 'lh.area.mid' (type = MRI_CURV_FILE)                       [ ok ]
mris_calc -o lh.area.mid lh.area.mid div 2
Saving result to 'lh.area.mid' (type = MRI_CURV_FILE)                       [ ok ]
mris_convert --volume 066 lh /study2/emowrap/data/freesurfer/subjects/066/surf/lh.volume
masking with /study2/emowrap/data/freesurfer/subjects/066/label/lh.cortex.label
Total face volume 242017
Total vertex volume 238685 (mask=0)
#@# 066 lh 238685

vertexvol Done
#--------------------------------------------
#@# Surf Volume rh Thu Jan  9 10:26:20 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/surf
/study2/emowrap/data/freesurfer/subjects/066/surf
mris_calc -o rh.area.mid rh.area add rh.area.pial
Saving result to 'rh.area.mid' (type = MRI_CURV_FILE)                       [ ok ]
mris_calc -o rh.area.mid rh.area.mid div 2
Saving result to 'rh.area.mid' (type = MRI_CURV_FILE)                       [ ok ]
mris_convert --volume 066 rh /study2/emowrap/data/freesurfer/subjects/066/surf/rh.volume
masking with /study2/emowrap/data/freesurfer/subjects/066/label/rh.cortex.label
Total face volume 245262
Total vertex volume 241762 (mask=0)
#@# 066 rh 241762

vertexvol Done
#--------------------------------------------
#@# Cortical ribbon mask Thu Jan  9 10:26:26 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/mri

 mris_volmask --aseg_name aseg.presurf --label_left_white 2 --label_left_ribbon 3 --label_right_white 41 --label_right_ribbon 42 --save_ribbon 066

SUBJECTS_DIR is /study2/emowrap/data/freesurfer/subjects
loading input data...
computing distance to left white surface
computing distance to left pial surface
computing distance to right white surface
computing distance to right pial surface
 hemi masks overlap voxels = 63
writing volume /study2/emowrap/data/freesurfer/subjects/066/mri/ribbon.mgz
mris_volmask took 22.69 minutes
 writing ribbon files
#-----------------------------------------
#@# Parcellation Stats lh Thu Jan  9 10:49:07 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_anatomical_stats -th3 -mgz -cortex ../label/lh.cortex.label -f ../stats/lh.aparc.stats -b -a ../label/lh.aparc.annot -c ../label/aparc.annot.ctab 066 lh white

computing statistics for each annotation in ../label/lh.aparc.annot.
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/wm.mgz...
reading input surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white...
reading input pial surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.pial...
reading input white surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white...
INFO: using TH3 volume calc
INFO: assuming MGZ format for volumes.
INFO: using ../label/lh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness.
Using TH3 vertex volume calc
Total face volume 242017
Total vertex volume 238685 (mask=0)
reading colortable from annotation file...
colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
Saving annotation colortable ../label/aparc.annot.ctab

table columns are:
    number of vertices
    total surface area (mm^2)
    total gray matter volume (mm^3)
    average cortical thickness +- standard deviation (mm)
    integrated rectified mean curvature
    integrated rectified Gaussian curvature
    folding index
    intrinsic curvature index
    structure name

atlas_icv (eTIV) = 1534407 mm^3    (det: 1.269614 )
lhCtxGM: 235858.017 235818.000  diff=   40.0  pctdiff= 0.017
rhCtxGM: 241318.199 240524.000  diff=  794.2  pctdiff= 0.329
lhCtxWM: 204397.779 204247.000  diff=  150.8  pctdiff= 0.074
rhCtxWM: 222307.320 225001.000  diff=-2693.7  pctdiff=-1.212
SubCortGMVol  52283.000
SupraTentVol  982799.313 (982161.000) diff=638.313 pctdiff=0.065
SupraTentVolNotVent  958939.313 (958301.000) diff=638.313 pctdiff=0.067
BrainSegVol  1113314.000 (1110424.000) diff=2890.000 pctdiff=0.260
BrainSegVolNotVent  1085412.000 (1083648.313) diff=1763.687 pctdiff=0.162
BrainSegVolNotVent  1085412.000
CerebellumVol 127056.000
VentChorVol   23860.000
3rd4th5thCSF   4042.000
CSFVol  1153.000, OptChiasmVol    54.000
MaskVol 1582486.000
 1307    901   2234  2.513 0.408     0.085     0.014        4     0.7  bankssts
  952    811    694  1.096 0.821     0.214     0.083       37     3.1  caudalanteriorcingulate
 4060   2503   6675  2.411 0.549     0.116     0.036       51     6.5  caudalmiddlefrontal
 2834   1777   3960  1.982 0.569     0.140     0.041       46     4.5  cuneus
  863    613   2312  2.990 0.811     0.128     0.029       14     0.9  entorhinal
 4133   2824   8532  2.678 0.617     0.129     0.029       57     4.7  fusiform
 9204   6210  16595  2.372 0.514     0.122     0.027      117    10.1  inferiorparietal
 6295   4172  12076  2.503 0.714     0.135     0.045      107    11.9  inferiortemporal
 1564    964   2362  2.200 0.704     0.129     0.042       27     2.4  isthmuscingulate
 7250   4574  10331  2.007 0.663     0.135     0.035      105    10.8  lateraloccipital
 4535   3017   7621  2.274 0.642     0.126     0.039       61     7.4  lateralorbitofrontal
 6203   3804   8144  1.990 0.639     0.128     0.035       78     8.8  lingual
 2879   1921   4583  2.097 0.573     0.126     0.033       45     4.1  medialorbitofrontal
 5691   3796  12603  2.687 0.693     0.129     0.032       77     7.6  middletemporal
  901    597   1829  2.605 0.656     0.108     0.024       10     0.8  parahippocampal
 2224   1271   3370  2.384 0.752     0.104     0.040       26     4.5  paracentral
 2264   1654   4698  2.421 0.468     0.127     0.031       39     2.8  parsopercularis
 1153    706   2192  2.341 0.752     0.159     0.064       24     3.1  parsorbitalis
 1484   1061   2634  2.199 0.542     0.132     0.027       18     1.8  parstriangularis
 2390   1672   2687  1.760 0.481     0.126     0.029       24     3.0  pericalcarine
 6103   3622   8241  2.062 0.554     0.101     0.029       65     7.6  postcentral
 1608   1077   2558  2.203 0.632     0.136     0.031       25     2.2  posteriorcingulate
 7512   4620  12212  2.460 0.555     0.108     0.032       83    11.0  precentral
 6090   4098   9918  2.303 0.487     0.125     0.025       69     6.3  precuneus
 1908   1293   2786  2.132 1.116     0.127     0.045       33     3.6  rostralanteriorcingulate
 8276   5614  14549  2.188 0.554     0.140     0.047      140    18.0  rostralmiddlefrontal
13080  10626  26454  2.300 0.731     0.144     0.039      227    22.5  superiorfrontal
 9710   6283  15210  2.145 0.522     0.114     0.029      111    11.3  superiorparietal
 4808   3477  10918  2.614 0.694     0.119     0.030       60     6.2  superiortemporal
 4621   3108   8351  2.395 0.541     0.129     0.032       63     6.2  supramarginal
  346    248    969  2.652 0.622     0.151     0.051        6     0.6  frontalpole
  634    455   2653  3.579 0.687     0.152     0.056       12     1.3  temporalpole
  617    378   1040  2.530 0.453     0.113     0.028        7     0.6  transversetemporal
 3445   2351   6634  2.660 0.772     0.123     0.041       41     5.6  insula

 mris_anatomical_stats -th3 -mgz -cortex ../label/lh.cortex.label -f ../stats/lh.aparc.pial.stats -b -a ../label/lh.aparc.annot -c ../label/aparc.annot.ctab 066 lh pial

computing statistics for each annotation in ../label/lh.aparc.annot.
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/wm.mgz...
reading input surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.pial...
reading input pial surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.pial...
reading input white surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white...
INFO: using TH3 volume calc
INFO: assuming MGZ format for volumes.
INFO: using ../label/lh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness.
Using TH3 vertex volume calc
Total face volume 242017
Total vertex volume 238685 (mask=0)
reading colortable from annotation file...
colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
Saving annotation colortable ../label/aparc.annot.ctab

table columns are:
    number of vertices
    total surface area (mm^2)
    total gray matter volume (mm^3)
    average cortical thickness +- standard deviation (mm)
    integrated rectified mean curvature
    integrated rectified Gaussian curvature
    folding index
    intrinsic curvature index
    structure name

atlas_icv (eTIV) = 1534407 mm^3    (det: 1.269614 )
lhCtxGM: 235858.017 235818.000  diff=   40.0  pctdiff= 0.017
rhCtxGM: 241318.199 240524.000  diff=  794.2  pctdiff= 0.329
lhCtxWM: 204397.779 204247.000  diff=  150.8  pctdiff= 0.074
rhCtxWM: 222307.320 225001.000  diff=-2693.7  pctdiff=-1.212
SubCortGMVol  52283.000
SupraTentVol  982799.313 (982161.000) diff=638.313 pctdiff=0.065
SupraTentVolNotVent  958939.313 (958301.000) diff=638.313 pctdiff=0.067
BrainSegVol  1113314.000 (1110424.000) diff=2890.000 pctdiff=0.260
BrainSegVolNotVent  1085412.000 (1083648.313) diff=1763.687 pctdiff=0.162
BrainSegVolNotVent  1085412.000
CerebellumVol 127056.000
VentChorVol   23860.000
3rd4th5thCSF   4042.000
CSFVol  1153.000, OptChiasmVol    54.000
MaskVol 1582486.000
 1307    840   2234  2.513 0.408     0.100     0.020       10     1.1  bankssts
  952    756    694  1.096 0.821     0.169     0.067       25     2.5  caudalanteriorcingulate
 4060   2905   6675  2.411 0.549     0.115     0.031       51     5.1  caudalmiddlefrontal
 2834   2251   3960  1.982 0.569     0.142     0.032       36     4.0  cuneus
  863    883   2312  2.990 0.811     0.168     0.038       16     1.5  entorhinal
 4133   3513   8532  2.678 0.617     0.142     0.032       56     6.0  fusiform
 9204   7584  16595  2.372 0.514     0.136     0.029      106    11.1  inferiorparietal
 6295   5108  12076  2.503 0.714     0.136     0.034      110    10.6  inferiortemporal
 1564   1141   2362  2.200 0.704     0.160     0.056       56     2.8  isthmuscingulate
 7250   5651  10331  2.007 0.663     0.135     0.033      124    12.0  lateraloccipital
 4535   3466   7621  2.274 0.642     0.138     0.032       59     6.6  lateralorbitofrontal
 6203   4493   8144  1.990 0.639     0.133     0.063      273    23.5  lingual
 2879   2439   4583  2.097 0.573     0.144     0.034       38     4.2  medialorbitofrontal
 5691   5183  12603  2.687 0.693     0.148     0.034       77     9.6  middletemporal
  901    846   1829  2.605 0.656     0.144     0.032        9     1.3  parahippocampal
 2224   1549   3370  2.384 0.752     0.114     0.038       27     4.8  paracentral
 2264   2140   4698  2.421 0.468     0.154     0.034       49     2.8  parsopercularis
 1153   1002   2192  2.341 0.752     0.163     0.044       14     2.2  parsorbitalis
 1484   1273   2634  2.199 0.542     0.159     0.032       20     2.2  parstriangularis
 2390   1469   2687  1.760 0.481     0.112     0.025       26     2.5  pericalcarine
 6103   4455   8241  2.062 0.554     0.106     0.018       40     4.9  postcentral
 1608   1287   2558  2.203 0.632     0.160     0.046       42     3.0  posteriorcingulate
 7512   5166  12212  2.460 0.555     0.105     0.023       74     7.6  precentral
 6090   4552   9918  2.303 0.487     0.133     0.029       74     7.6  precuneus
 1908   1526   2786  2.132 1.116     0.147     0.045       31     3.6  rostralanteriorcingulate
 8276   7301  14549  2.188 0.554     0.166     0.037      123    14.4  rostralmiddlefrontal
13080  13048  26454  2.300 0.731     0.166     0.043      199    27.9  superiorfrontal
 9710   7611  15210  2.145 0.522     0.127     0.027      105    10.7  superiorparietal
 4808   4514  10918  2.614 0.694     0.144     0.031       58     6.6  superiortemporal
 4621   3679   8351  2.395 0.541     0.139     0.036       56     5.7  supramarginal
  346    456    969  2.652 0.622     0.218     0.043        5     0.6  frontalpole
  634    980   2653  3.579 0.687     0.221     0.039        7     1.3  temporalpole
  617    460   1040  2.530 0.453     0.105     0.018        4     0.4  transversetemporal
 3445   2453   6634  2.660 0.772     0.147     0.042      100     7.0  insula
#-----------------------------------------
#@# Parcellation Stats rh Thu Jan  9 10:51:32 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_anatomical_stats -th3 -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.stats -b -a ../label/rh.aparc.annot -c ../label/aparc.annot.ctab 066 rh white

computing statistics for each annotation in ../label/rh.aparc.annot.
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/wm.mgz...
reading input surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white...
reading input pial surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.pial...
reading input white surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white...
INFO: using TH3 volume calc
INFO: assuming MGZ format for volumes.
INFO: using ../label/rh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness.
Using TH3 vertex volume calc
Total face volume 245262
Total vertex volume 241762 (mask=0)
reading colortable from annotation file...
colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
Saving annotation colortable ../label/aparc.annot.ctab

table columns are:
    number of vertices
    total surface area (mm^2)
    total gray matter volume (mm^3)
    average cortical thickness +- standard deviation (mm)
    integrated rectified mean curvature
    integrated rectified Gaussian curvature
    folding index
    intrinsic curvature index
    structure name

atlas_icv (eTIV) = 1534407 mm^3    (det: 1.269614 )
lhCtxGM: 235858.017 235818.000  diff=   40.0  pctdiff= 0.017
rhCtxGM: 241318.199 240524.000  diff=  794.2  pctdiff= 0.329
lhCtxWM: 204397.779 204247.000  diff=  150.8  pctdiff= 0.074
rhCtxWM: 222307.320 225001.000  diff=-2693.7  pctdiff=-1.212
SubCortGMVol  52283.000
SupraTentVol  982799.313 (982161.000) diff=638.313 pctdiff=0.065
SupraTentVolNotVent  958939.313 (958301.000) diff=638.313 pctdiff=0.067
BrainSegVol  1113314.000 (1110424.000) diff=2890.000 pctdiff=0.260
BrainSegVolNotVent  1085412.000 (1083648.313) diff=1763.687 pctdiff=0.162
BrainSegVolNotVent  1085412.000
CerebellumVol 127056.000
VentChorVol   23860.000
3rd4th5thCSF   4042.000
CSFVol  1153.000, OptChiasmVol    54.000
MaskVol 1582486.000
 1359    937   1986  2.200 0.406     0.096     0.020        9     1.0  bankssts
 1799   1280   2707  1.677 1.036     0.146     0.046       47     3.5  caudalanteriorcingulate
 4341   2720   6911  2.292 0.562     0.122     0.042       59     8.4  caudalmiddlefrontal
 3124   1902   4010  1.892 0.521     0.131     0.033       43     4.0  cuneus
  607    395   1922  3.242 0.732     0.146     0.044       11     1.3  entorhinal
 4902   3266   9324  2.576 0.626     0.121     0.031       82     6.2  fusiform
 9911   6618  16729  2.274 0.477     0.120     0.029      131    11.4  inferiorparietal
 5594   3790  11207  2.519 0.788     0.133     0.040       98     9.4  inferiortemporal
 1420    921   2701  2.485 0.718     0.148     0.043       27     2.5  isthmuscingulate
 8257   5156  11910  2.088 0.594     0.133     0.039      116    12.9  lateraloccipital
 5063   3338   7988  2.210 0.728     0.141     0.047       84     9.6  lateralorbitofrontal
 6342   3968   8026  1.892 0.594     0.134     0.034       89     9.4  lingual
 2953   2089   5682  2.260 0.698     0.137     0.045       61     6.0  medialorbitofrontal
 5615   3722  11335  2.546 0.671     0.128     0.037       86     9.1  middletemporal
 1196    688   1886  2.433 0.620     0.087     0.017        8     0.6  parahippocampal
 2612   1492   3975  2.448 0.598     0.102     0.046       43     5.5  paracentral
 2428   1571   3939  2.324 0.469     0.115     0.029       27     2.7  parsopercularis
 1259    844   2479  2.276 0.684     0.134     0.033       20     1.8  parsorbitalis
 3069   1988   4784  2.119 0.501     0.132     0.046       56     5.2  parstriangularis
 2793   1882   2867  1.660 0.483     0.134     0.034       29     4.1  pericalcarine
 6238   3789   7919  1.900 0.574     0.097     0.026       63     7.4  postcentral
 1714   1240   3112  2.288 0.719     0.138     0.032       24     2.4  posteriorcingulate
 8664   4987  12698  2.417 0.616     0.111     0.041      125    14.7  precentral
 5804   3881   9826  2.363 0.544     0.119     0.026       69     5.8  precuneus
  955    598   1723  2.479 1.012     0.122     0.033       13     1.3  rostralanteriorcingulate
11370   7469  17857  2.076 0.564     0.132     0.043      192    19.8  rostralmiddlefrontal
10300   6966  20728  2.563 0.572     0.122     0.031      128    12.5  superiorfrontal
 9184   5997  14834  2.165 0.533     0.121     0.032      124    12.9  superiorparietal
 5121   3493   9739  2.427 0.651     0.111     0.026       53     5.3  superiortemporal
 5195   3406   9053  2.379 0.509     0.121     0.029       67     6.2  supramarginal
  603    371    942  2.091 0.664     0.186     0.065       16     2.0  frontalpole
  665    491   3142  3.691 0.828     0.157     0.037       11     1.1  temporalpole
  702    331   1071  2.588 0.512     0.092     0.034        7     1.0  transversetemporal
 3506   2413   6685  2.621 0.800     0.117     0.032       35     4.3  insula

 mris_anatomical_stats -th3 -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.pial.stats -b -a ../label/rh.aparc.annot -c ../label/aparc.annot.ctab 066 rh pial

computing statistics for each annotation in ../label/rh.aparc.annot.
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/wm.mgz...
reading input surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.pial...
reading input pial surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.pial...
reading input white surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white...
INFO: using TH3 volume calc
INFO: assuming MGZ format for volumes.
INFO: using ../label/rh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness.
Using TH3 vertex volume calc
Total face volume 245262
Total vertex volume 241762 (mask=0)
reading colortable from annotation file...
colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
Saving annotation colortable ../label/aparc.annot.ctab

table columns are:
    number of vertices
    total surface area (mm^2)
    total gray matter volume (mm^3)
    average cortical thickness +- standard deviation (mm)
    integrated rectified mean curvature
    integrated rectified Gaussian curvature
    folding index
    intrinsic curvature index
    structure name

atlas_icv (eTIV) = 1534407 mm^3    (det: 1.269614 )
lhCtxGM: 235858.017 235818.000  diff=   40.0  pctdiff= 0.017
rhCtxGM: 241318.199 240524.000  diff=  794.2  pctdiff= 0.329
lhCtxWM: 204397.779 204247.000  diff=  150.8  pctdiff= 0.074
rhCtxWM: 222307.320 225001.000  diff=-2693.7  pctdiff=-1.212
SubCortGMVol  52283.000
SupraTentVol  982799.313 (982161.000) diff=638.313 pctdiff=0.065
SupraTentVolNotVent  958939.313 (958301.000) diff=638.313 pctdiff=0.067
BrainSegVol  1113314.000 (1110424.000) diff=2890.000 pctdiff=0.260
BrainSegVolNotVent  1085412.000 (1083648.313) diff=1763.687 pctdiff=0.162
BrainSegVolNotVent  1085412.000
CerebellumVol 127056.000
VentChorVol   23860.000
3rd4th5thCSF   4042.000
CSFVol  1153.000, OptChiasmVol    54.000
MaskVol 1582486.000
 1359    842   1986  2.200 0.406     0.109     0.023       18     1.4  bankssts
 1799   1627   2707  1.677 1.036     0.161     0.042       29     3.5  caudalanteriorcingulate
 4341   3107   6911  2.292 0.562     0.120     0.025       44     4.6  caudalmiddlefrontal
 3124   2429   4010  1.892 0.521     0.130     0.028       35     3.9  cuneus
  607    740   1922  3.242 0.732     0.190     0.055       12     1.9  entorhinal
 4902   3855   9324  2.576 0.626     0.134     0.033       81     7.3  fusiform
 9911   7804  16729  2.274 0.477     0.131     0.033      120    15.8  inferiorparietal
 5594   4839  11207  2.519 0.788     0.145     0.038       92    10.2  inferiortemporal
 1420   1169   2701  2.485 0.718     0.173     0.068       51     4.4  isthmuscingulate
 8257   6284  11910  2.088 0.594     0.131     0.034      125    11.8  lateraloccipital
 5063   3775   7988  2.210 0.728     0.151     0.043       84     9.2  lateralorbitofrontal
 6342   4669   8026  1.892 0.594     0.126     0.032       92     9.6  lingual
 2953   2728   5682  2.260 0.698     0.164     0.039       60     5.2  medialorbitofrontal
 5615   4938  11335  2.546 0.671     0.143     0.033       71     8.0  middletemporal
 1196    868   1886  2.433 0.620     0.111     0.025       13     1.4  parahippocampal
 2612   1689   3975  2.448 0.598     0.100     0.022       29     2.4  paracentral
 2428   1730   3939  2.324 0.469     0.122     0.027       30     2.6  parsopercularis
 1259   1277   2479  2.276 0.684     0.171     0.035       16     2.0  parsorbitalis
 3069   2432   4784  2.119 0.501     0.145     0.035       51     4.4  parstriangularis
 2793   1647   2867  1.660 0.483     0.111     0.030       44     3.4  pericalcarine
 6238   4482   7919  1.900 0.574     0.104     0.018       43     4.9  postcentral
 1714   1410   3112  2.288 0.719     0.147     0.034       27     2.4  posteriorcingulate
 8664   5489  12698  2.417 0.616     0.096     0.025      107     9.5  precentral
 5804   4335   9826  2.363 0.544     0.132     0.028       75     7.2  precuneus
  955    830   1723  2.479 1.012     0.185     0.045       17     2.1  rostralanteriorcingulate
11370   9295  17857  2.076 0.564     0.145     0.032      143    17.4  rostralmiddlefrontal
10300   8724  20728  2.563 0.572     0.137     0.030      115    13.6  superiorfrontal
 9184   7449  14834  2.165 0.533     0.139     0.037      174    17.8  superiorparietal
 5121   4313   9739  2.427 0.651     0.138     0.028       56     6.7  superiortemporal
 5195   4048   9053  2.379 0.509     0.129     0.028       54     6.2  supramarginal
  603    499    942  2.091 0.664     0.162     0.042        6     1.2  frontalpole
  665   1127   3142  3.691 0.828     0.250     0.054        8     1.8  temporalpole
  702    468   1071  2.588 0.512     0.082     0.012        2     0.3  transversetemporal
 3506   2463   6685  2.621 0.800     0.137     0.037       51     5.6  insula
#-----------------------------------------
#@# Cortical Parc 2 lh Thu Jan  9 10:54:09 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 066 lh ../surf/lh.sphere.reg /apps/x86_64_sci7/freesurfer-6.0.0/average/lh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.a2009s.annot

setting seed for random number generator to 1234
using ../mri/aseg.presurf.mgz aseg volume to correct midline
$Id: mris_ca_label.c,v 1.37 2014/02/04 17:46:42 fischl Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading atlas from /apps/x86_64_sci7/freesurfer-6.0.0/average/lh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs...
reading color table from GCSA file....
average std = 2.9   using min determinant for regularization = 0.086
0 singular and 762 ill-conditioned covariance matrices regularized
input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature
labeling surface...
277 labels changed using aseg
relabeling using gibbs priors...
000:   9297 changed, 144925 examined...
001:   2136 changed, 36040 examined...
002:    729 changed, 11368 examined...
003:    300 changed, 4047 examined...
004:    121 changed, 1676 examined...
005:     71 changed, 714 examined...
006:     28 changed, 391 examined...
007:     24 changed, 172 examined...
008:      8 changed, 126 examined...
009:      5 changed, 55 examined...
010:      5 changed, 30 examined...
011:      2 changed, 24 examined...
012:      3 changed, 14 examined...
013:      3 changed, 18 examined...
014:      1 changed, 11 examined...
015:      0 changed, 5 examined...
128 labels changed using aseg
000: 270 total segments, 181 labels (2422 vertices) changed
001: 99 total segments, 12 labels (70 vertices) changed
002: 87 total segments, 0 labels (0 vertices) changed
10 filter iterations complete (10 requested, 40 changed)
rationalizing unknown annotations with cortex label
relabeling Medial_wall label...
1392 vertices marked for relabeling...
1392 labels changed in reclassification.
writing output to ../label/lh.aparc.a2009s.annot...
classification took 0 minutes and 32 seconds.
#-----------------------------------------
#@# Cortical Parc 2 rh Thu Jan  9 10:54:41 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 066 rh ../surf/rh.sphere.reg /apps/x86_64_sci7/freesurfer-6.0.0/average/rh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/rh.aparc.a2009s.annot

setting seed for random number generator to 1234
using ../mri/aseg.presurf.mgz aseg volume to correct midline
$Id: mris_ca_label.c,v 1.37 2014/02/04 17:46:42 fischl Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading atlas from /apps/x86_64_sci7/freesurfer-6.0.0/average/rh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs...
reading color table from GCSA file....
average std = 1.4   using min determinant for regularization = 0.020
0 singular and 719 ill-conditioned covariance matrices regularized
input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature
labeling surface...
0 labels changed using aseg
relabeling using gibbs priors...
000:   9751 changed, 152355 examined...
001:   2246 changed, 38087 examined...
002:    626 changed, 11704 examined...
003:    262 changed, 3593 examined...
004:    120 changed, 1516 examined...
005:     48 changed, 668 examined...
006:     27 changed, 260 examined...
007:     14 changed, 154 examined...
008:      6 changed, 81 examined...
009:      2 changed, 33 examined...
010:      4 changed, 13 examined...
011:      3 changed, 21 examined...
012:      1 changed, 17 examined...
013:      0 changed, 7 examined...
0 labels changed using aseg
000: 297 total segments, 201 labels (2429 vertices) changed
001: 104 total segments, 10 labels (63 vertices) changed
002: 94 total segments, 0 labels (0 vertices) changed
10 filter iterations complete (10 requested, 45 changed)
rationalizing unknown annotations with cortex label
relabeling Medial_wall label...
2006 vertices marked for relabeling...
2006 labels changed in reclassification.
writing output to ../label/rh.aparc.a2009s.annot...
classification took 0 minutes and 34 seconds.
#-----------------------------------------
#@# Parcellation Stats 2 lh Thu Jan  9 10:55:16 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_anatomical_stats -th3 -mgz -cortex ../label/lh.cortex.label -f ../stats/lh.aparc.a2009s.stats -b -a ../label/lh.aparc.a2009s.annot -c ../label/aparc.annot.a2009s.ctab 066 lh white

computing statistics for each annotation in ../label/lh.aparc.a2009s.annot.
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/wm.mgz...
reading input surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white...
reading input pial surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.pial...
reading input white surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white...
INFO: using TH3 volume calc
INFO: assuming MGZ format for volumes.
INFO: using ../label/lh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness.
Using TH3 vertex volume calc
Total face volume 242017
Total vertex volume 238685 (mask=0)
reading colortable from annotation file...
colortable with 76 entries read (originally Simple_surface_labels2008.txt)
Saving annotation colortable ../label/aparc.annot.a2009s.ctab

table columns are:
    number of vertices
    total surface area (mm^2)
    total gray matter volume (mm^3)
    average cortical thickness +- standard deviation (mm)
    integrated rectified mean curvature
    integrated rectified Gaussian curvature
    folding index
    intrinsic curvature index
    structure name

atlas_icv (eTIV) = 1534407 mm^3    (det: 1.269614 )
lhCtxGM: 235858.017 235818.000  diff=   40.0  pctdiff= 0.017
rhCtxGM: 241318.199 240524.000  diff=  794.2  pctdiff= 0.329
lhCtxWM: 204397.779 204247.000  diff=  150.8  pctdiff= 0.074
rhCtxWM: 222307.320 225001.000  diff=-2693.7  pctdiff=-1.212
SubCortGMVol  52283.000
SupraTentVol  982799.313 (982161.000) diff=638.313 pctdiff=0.065
SupraTentVolNotVent  958939.313 (958301.000) diff=638.313 pctdiff=0.067
BrainSegVol  1113314.000 (1110424.000) diff=2890.000 pctdiff=0.260
BrainSegVolNotVent  1085412.000 (1083648.313) diff=1763.687 pctdiff=0.162
BrainSegVolNotVent  1085412.000
CerebellumVol 127056.000
VentChorVol   23860.000
3rd4th5thCSF   4042.000
CSFVol  1153.000, OptChiasmVol    54.000
MaskVol 1582486.000
 1132    800   1976  2.079 0.553     0.153     0.040       20     2.0  G&S_frontomargin
 1468    943   2614  2.357 0.719     0.137     0.035       18     2.1  G&S_occipital_inf
 1642    853   2330  2.306 0.605     0.110     0.044       21     3.2  G&S_paracentral
 1334    890   2827  2.664 0.446     0.129     0.033       19     1.6  G&S_subcentral
  740    501   1717  2.354 0.621     0.167     0.059       20     1.6  G&S_transv_frontopol
 2520   2351   3732  1.748 0.878     0.154     0.047       49     5.2  G&S_cingul-Ant
 2032   2159   2893  1.407 0.799     0.189     0.049       50     4.1  G&S_cingul-Mid-Ant
 1693   1205   2816  2.275 0.465     0.129     0.030       24     2.2  G&S_cingul-Mid-Post
  543    368   1441  2.760 0.483     0.136     0.031        9     0.7  G_cingul-Post-dorsal
  347    195    496  2.158 0.670     0.121     0.059        6     0.5  G_cingul-Post-ventral
 2584   1556   3555  1.924 0.600     0.140     0.045       44     4.6  G_cuneus
 1484   1062   3359  2.469 0.460     0.139     0.040       34     2.4  G_front_inf-Opercular
  446    254    857  2.339 0.520     0.137     0.050       10     0.8  G_front_inf-Orbital
  769    549   1874  2.583 0.475     0.144     0.036       14     1.0  G_front_inf-Triangul
 5082   3114   9847  2.397 0.565     0.138     0.059      101    14.6  G_front_middle
 8576   6068  18984  2.554 0.709     0.143     0.045      172    17.1  G_front_sup
  707    452   1465  2.674 0.785     0.142     0.053       14     1.5  G_Ins_lg&S_cent_ins
  677    418   2005  3.221 0.788     0.139     0.055       14     1.5  G_insular_short
 2469   1494   5279  2.527 0.613     0.132     0.037       55     3.8  G_occipital_middle
 1591    951   2517  2.149 0.644     0.121     0.043       23     3.3  G_occipital_sup
 1743   1102   4098  2.917 0.555     0.131     0.028       30     1.9  G_oc-temp_lat-fusifor
 4537   2587   5897  1.940 0.675     0.136     0.041       68     7.7  G_oc-temp_med-Lingual
 1451    967   3760  2.960 0.765     0.127     0.032       24     1.5  G_oc-temp_med-Parahip
 2963   1831   5644  2.301 0.771     0.150     0.063       62     8.0  G_orbital
 3668   2427   7358  2.449 0.557     0.141     0.036       66     5.2  G_pariet_inf-Angular
 2290   1479   4873  2.570 0.492     0.132     0.033       38     3.3  G_pariet_inf-Supramar
 4048   2564   7631  2.334 0.573     0.123     0.034       60     4.9  G_parietal_sup
 2528   1286   3423  2.137 0.535     0.109     0.038       38     4.4  G_postcentral
 3168   1680   5466  2.568 0.618     0.117     0.047       56     7.3  G_precentral
 3002   1931   5915  2.413 0.455     0.140     0.032       52     3.8  G_precuneus
 1267    794   2176  2.088 0.627     0.148     0.051       28     2.7  G_rectus
  936    602   1599  2.573 0.960     0.122     0.057       15     1.8  G_subcallosal
  448    257    824  2.558 0.518     0.104     0.031        5     0.5  G_temp_sup-G_T_transv
 1776   1200   5641  3.007 0.724     0.143     0.046       39     3.4  G_temp_sup-Lateral
  564    443   1574  2.943 0.715     0.094     0.018        3     0.4  G_temp_sup-Plan_polar
  898    629   1608  2.395 0.594     0.097     0.022        8     0.7  G_temp_sup-Plan_tempo
 3478   2206   7439  2.543 0.827     0.156     0.059       83     8.7  G_temporal_inf
 3438   2232   8622  2.794 0.727     0.137     0.039       59     5.6  G_temporal_middle
  271    188    295  1.735 0.342     0.123     0.020        2     0.2  Lat_Fis-ant-Horizont
  218    175    320  2.051 0.414     0.116     0.020        1     0.2  Lat_Fis-ant-Vertical
  988    693   1250  2.161 0.498     0.106     0.020        5     0.9  Lat_Fis-post
 2200   1366   2511  1.660 0.530     0.146     0.044       33     4.2  Pole_occipital
 1820   1276   5572  3.033 0.857     0.152     0.059       35     4.4  Pole_temporal
 3149   2211   3777  1.959 0.567     0.115     0.022       26     3.0  S_calcarine
 2869   1994   3627  2.065 0.543     0.090     0.017       12     2.1  S_central
 1161    828   1506  1.983 0.452     0.110     0.018        7     1.0  S_cingul-Marginalis
  536    369    778  2.429 0.447     0.085     0.016        2     0.3  S_circular_insula_ant
 1221    929   1943  2.470 0.682     0.099     0.022        6     1.4  S_circular_insula_inf
 1692   1214   2314  2.237 0.490     0.110     0.022        8     1.7  S_circular_insula_sup
  906    663   1466  2.360 0.527     0.110     0.013        6     0.5  S_collat_transv_ant
  498    339    636  2.030 0.451     0.159     0.037        7     0.8  S_collat_transv_post
 1837   1342   2829  2.160 0.512     0.121     0.025       18     2.1  S_front_inf
 1655   1202   2198  1.985 0.459     0.129     0.029       14     2.2  S_front_middle
 3500   2369   5686  2.314 0.509     0.113     0.030       38     4.4  S_front_sup
  119     88    204  2.540 0.468     0.138     0.019        1     0.1  S_interm_prim-Jensen
 3872   2662   5161  2.007 0.387     0.095     0.014       24     2.2  S_intrapariet&P_trans
  888    613    954  1.755 0.357     0.117     0.020        7     0.8  S_oc_middle&Lunatus
 1671   1185   2176  2.000 0.462     0.109     0.020       12     1.4  S_oc_sup&transversal
  569    401    786  2.231 0.383     0.110     0.017        4     0.4  S_occipital_ant
  976    682   1495  2.455 0.465     0.110     0.021        7     0.8  S_oc-temp_lat
 2189   1588   3209  2.264 0.504     0.112     0.022       15     1.9  S_oc-temp_med&Lingual
  295    237    386  1.663 0.314     0.142     0.021        2     0.4  S_orbital_lateral
 1064    755   1387  2.078 0.504     0.103     0.015        6     0.7  S_orbital_med-olfact
 1584   1096   2746  2.392 0.521     0.121     0.027       15     1.9  S_orbital-H_Shaped
 2589   1701   3444  2.172 0.503     0.112     0.021       21     2.3  S_parieto_occipital
  949    617    786  1.610 0.768     0.130     0.046       19     1.8  S_pericallosal
 2592   1753   3158  1.934 0.434     0.115     0.025       21     2.5  S_postcentral
 1642   1135   2643  2.394 0.450     0.101     0.018       10     1.3  S_precentral-inf-part
 1284    888   1876  2.298 0.431     0.093     0.017        6     0.9  S_precentral-sup-part
  725    528    971  1.864 0.413     0.121     0.019        7     0.6  S_suborbital
 1005    725   1372  2.181 0.450     0.122     0.025        6     1.1  S_subparietal
 2071   1437   3057  2.390 0.468     0.109     0.019       13     1.6  S_temporal_inf
 6089   4292   9648  2.375 0.445     0.104     0.019       42     5.0  S_temporal_sup
  260    198    391  2.397 0.338     0.130     0.019        2     0.3  S_temporal_transverse
#-----------------------------------------
#@# Parcellation Stats 2 rh Thu Jan  9 10:56:29 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_anatomical_stats -th3 -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.a2009s.stats -b -a ../label/rh.aparc.a2009s.annot -c ../label/aparc.annot.a2009s.ctab 066 rh white

computing statistics for each annotation in ../label/rh.aparc.a2009s.annot.
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/wm.mgz...
reading input surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white...
reading input pial surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.pial...
reading input white surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white...
INFO: using TH3 volume calc
INFO: assuming MGZ format for volumes.
INFO: using ../label/rh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness.
Using TH3 vertex volume calc
Total face volume 245262
Total vertex volume 241762 (mask=0)
reading colortable from annotation file...
colortable with 76 entries read (originally Simple_surface_labels2008.txt)
Saving annotation colortable ../label/aparc.annot.a2009s.ctab

table columns are:
    number of vertices
    total surface area (mm^2)
    total gray matter volume (mm^3)
    average cortical thickness +- standard deviation (mm)
    integrated rectified mean curvature
    integrated rectified Gaussian curvature
    folding index
    intrinsic curvature index
    structure name

atlas_icv (eTIV) = 1534407 mm^3    (det: 1.269614 )
lhCtxGM: 235858.017 235818.000  diff=   40.0  pctdiff= 0.017
rhCtxGM: 241318.199 240524.000  diff=  794.2  pctdiff= 0.329
lhCtxWM: 204397.779 204247.000  diff=  150.8  pctdiff= 0.074
rhCtxWM: 222307.320 225001.000  diff=-2693.7  pctdiff=-1.212
SubCortGMVol  52283.000
SupraTentVol  982799.313 (982161.000) diff=638.313 pctdiff=0.065
SupraTentVolNotVent  958939.313 (958301.000) diff=638.313 pctdiff=0.067
BrainSegVol  1113314.000 (1110424.000) diff=2890.000 pctdiff=0.260
BrainSegVolNotVent  1085412.000 (1083648.313) diff=1763.687 pctdiff=0.162
BrainSegVolNotVent  1085412.000
CerebellumVol 127056.000
VentChorVol   23860.000
3rd4th5thCSF   4042.000
CSFVol  1153.000, OptChiasmVol    54.000
MaskVol 1582486.000
 1073    756   1527  1.843 0.536     0.126     0.035       13     1.5  G&S_frontomargin
 1400    869   2104  2.248 0.559     0.128     0.037       16     2.1  G&S_occipital_inf
 1709    901   2381  2.314 0.657     0.111     0.056       23     3.6  G&S_paracentral
 1340    881   2573  2.493 0.556     0.125     0.031       22     1.7  G&S_subcentral
 1843   1159   2902  2.057 0.581     0.151     0.050       36     3.9  G&S_transv_frontopol
 2858   2011   5171  2.310 0.678     0.129     0.035       47     4.4  G&S_cingul-Ant
 1280    944   2731  2.514 0.545     0.115     0.027       11     1.3  G&S_cingul-Mid-Ant
 1310    908   2507  2.583 0.453     0.111     0.025       12     1.3  G&S_cingul-Mid-Post
  482    348   1528  2.944 0.356     0.159     0.034        9     0.7  G_cingul-Post-dorsal
  385    218    688  2.538 0.775     0.144     0.048        8     0.8  G_cingul-Post-ventral
 2936   1763   3724  1.851 0.535     0.129     0.030       38     3.6  G_cuneus
 1771   1066   3324  2.393 0.479     0.127     0.045       33     3.6  G_front_inf-Opercular
  464    300    974  2.347 0.439     0.130     0.036        7     0.7  G_front_inf-Orbital
 1530    914   2646  2.242 0.518     0.149     0.061       42     3.0  G_front_inf-Triangul
 5400   3113   9522  2.273 0.610     0.146     0.062      129    14.8  G_front_middle
 6846   4425  15948  2.764 0.568     0.135     0.044      142    12.8  G_front_sup
  638    445   1501  3.112 0.619     0.112     0.029        6     0.7  G_Ins_lg&S_cent_ins
  863    558   2275  3.048 0.896     0.151     0.050       17     1.7  G_insular_short
 3276   2059   6757  2.453 0.569     0.134     0.038       66     4.7  G_occipital_middle
 1877   1127   3465  2.272 0.660     0.124     0.028       26     2.0  G_occipital_sup
 2448   1445   4960  2.615 0.678     0.134     0.044       58     4.1  G_oc-temp_lat-fusifor
 4213   2446   5180  1.831 0.609     0.136     0.040       69     7.3  G_oc-temp_med-Lingual
 1289    772   3319  2.914 0.850     0.115     0.033       15     1.7  G_oc-temp_med-Parahip
 3205   1993   6398  2.338 0.825     0.153     0.054       70     7.1  G_orbital
 3470   2180   6516  2.324 0.525     0.127     0.037       60     4.8  G_pariet_inf-Angular
 2304   1452   4754  2.532 0.554     0.130     0.038       40     3.6  G_pariet_inf-Supramar
 3014   1942   5737  2.264 0.569     0.129     0.038       52     5.0  G_parietal_sup
 2357   1232   2989  1.891 0.557     0.103     0.034       35     3.7  G_postcentral
 3706   1782   5784  2.584 0.676     0.115     0.049       71     8.1  G_precentral
 2687   1743   5317  2.362 0.598     0.140     0.035       55     3.8  G_precuneus
  746    522   1750  2.301 0.597     0.164     0.075       22     2.7  G_rectus
  486    306    687  1.953 0.919     0.110     0.038        5     0.8  G_subcallosal
  545    249    997  2.809 0.559     0.100     0.039        6     0.9  G_temp_sup-G_T_transv
 1893   1229   4626  2.661 0.673     0.140     0.042       36     3.0  G_temp_sup-Lateral
  819    589   1934  2.844 0.820     0.097     0.019        5     0.6  G_temp_sup-Plan_polar
  841    568   1447  2.325 0.492     0.095     0.020        6     0.8  G_temp_sup-Plan_tempo
 3138   2096   7010  2.534 0.836     0.146     0.052       74     6.8  G_temporal_inf
 3370   2167   7659  2.623 0.697     0.143     0.049       68     7.1  G_temporal_middle
  486    343    559  1.936 0.319     0.093     0.016        2     0.3  Lat_Fis-ant-Horizont
  279    184    370  2.423 0.357     0.106     0.015        2     0.2  Lat_Fis-ant-Vertical
 1546   1044   1981  2.230 0.454     0.106     0.022       12     1.2  Lat_Fis-post
 4027   2491   4862  1.792 0.607     0.148     0.047       68     7.8  Pole_occipital
 1864   1260   5905  3.094 0.909     0.141     0.041       33     3.5  Pole_temporal
 2915   1988   3581  2.004 0.603     0.127     0.028       27     3.4  S_calcarine
 3131   2116   3545  1.972 0.624     0.093     0.031       20     3.1  S_central
 1333    939   1955  2.170 0.450     0.096     0.018        6     1.1  S_cingul-Marginalis
  522    379    795  2.301 0.561     0.114     0.028        3     0.7  S_circular_insula_ant
 1161    829   1537  2.124 0.631     0.081     0.012        4     0.6  S_circular_insula_inf
 1443   1037   1928  2.098 0.482     0.116     0.031       10     1.9  S_circular_insula_sup
 1112    801   1993  2.488 0.674     0.117     0.020       14     0.9  S_collat_transv_ant
  517    353    629  2.166 0.342     0.126     0.026        4     0.6  S_collat_transv_post
 3214   2134   4166  1.982 0.489     0.112     0.029       35     3.6  S_front_inf
 3029   2189   4709  2.088 0.548     0.125     0.031       31     3.7  S_front_middle
 3118   2153   4833  2.314 0.460     0.098     0.019       20     2.5  S_front_sup
  334    231    538  2.285 0.338     0.115     0.018        2     0.3  S_interm_prim-Jensen
 3557   2430   4529  1.990 0.397     0.105     0.024       31     4.2  S_intrapariet&P_trans
 1060    736   1187  1.963 0.391     0.117     0.025        7     1.1  S_oc_middle&Lunatus
 1586   1116   2136  2.138 0.357     0.107     0.019       10     1.2  S_oc_sup&transversal
  616    450    993  2.302 0.417     0.114     0.021        5     0.6  S_occipital_ant
 1271    921   1928  2.458 0.354     0.088     0.013        5     0.7  S_oc-temp_lat
 2382   1737   3375  2.224 0.496     0.113     0.018       18     1.7  S_oc-temp_med&Lingual
  537    422    618  1.597 0.275     0.118     0.018        3     0.5  S_orbital_lateral
 1279    900   1662  2.113 0.577     0.119     0.037       15     1.8  S_orbital_med-olfact
 1729   1183   2563  2.174 0.580     0.137     0.038       26     2.7  S_orbital-H_Shaped
 2208   1465   3041  2.225 0.545     0.109     0.022       18     2.0  S_parieto_occipital
 2384   1577   1945  1.496 0.915     0.148     0.046       57     4.6  S_pericallosal
 2650   1726   3104  2.005 0.398     0.094     0.019       15     1.9  S_postcentral
 1900   1289   2567  2.252 0.376     0.101     0.019       12     1.4  S_precentral-inf-part
 1498    986   1885  2.112 0.521     0.103     0.026       12     2.0  S_precentral-sup-part
  235    170    453  2.590 0.655     0.110     0.021        1     0.2  S_suborbital
 1253    900   1967  2.373 0.418     0.132     0.029       10     1.4  S_subparietal
 1532   1063   2032  2.183 0.531     0.122     0.021       17     1.3  S_temporal_inf
 6907   4814  10208  2.265 0.446     0.104     0.020       49     5.7  S_temporal_sup
  277    197    366  2.153 0.474     0.113     0.016        2     0.2  S_temporal_transverse
#-----------------------------------------
#@# Cortical Parc 3 lh Thu Jan  9 10:57:48 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 066 lh ../surf/lh.sphere.reg /apps/x86_64_sci7/freesurfer-6.0.0/average/lh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.DKTatlas.annot

setting seed for random number generator to 1234
using ../mri/aseg.presurf.mgz aseg volume to correct midline
$Id: mris_ca_label.c,v 1.37 2014/02/04 17:46:42 fischl Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading atlas from /apps/x86_64_sci7/freesurfer-6.0.0/average/lh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs...
reading color table from GCSA file....
average std = 1.4   using min determinant for regularization = 0.020
0 singular and 383 ill-conditioned covariance matrices regularized
input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature
labeling surface...
968 labels changed using aseg
relabeling using gibbs priors...
000:   2056 changed, 144925 examined...
001:    440 changed, 9528 examined...
002:    103 changed, 2522 examined...
003:     39 changed, 623 examined...
004:     16 changed, 235 examined...
005:     11 changed, 83 examined...
006:      7 changed, 57 examined...
007:      8 changed, 31 examined...
008:      6 changed, 31 examined...
009:      5 changed, 27 examined...
010:      2 changed, 21 examined...
011:      2 changed, 9 examined...
012:      1 changed, 10 examined...
013:      2 changed, 4 examined...
014:      2 changed, 16 examined...
015:      0 changed, 11 examined...
205 labels changed using aseg
000: 61 total segments, 28 labels (329 vertices) changed
001: 33 total segments, 0 labels (0 vertices) changed
10 filter iterations complete (10 requested, 2 changed)
rationalizing unknown annotations with cortex label
relabeling unknown label...
relabeling corpuscallosum label...
819 vertices marked for relabeling...
819 labels changed in reclassification.
writing output to ../label/lh.aparc.DKTatlas.annot...
classification took 0 minutes and 25 seconds.
#-----------------------------------------
#@# Cortical Parc 3 rh Thu Jan  9 10:58:13 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 066 rh ../surf/rh.sphere.reg /apps/x86_64_sci7/freesurfer-6.0.0/average/rh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/rh.aparc.DKTatlas.annot

setting seed for random number generator to 1234
using ../mri/aseg.presurf.mgz aseg volume to correct midline
$Id: mris_ca_label.c,v 1.37 2014/02/04 17:46:42 fischl Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading atlas from /apps/x86_64_sci7/freesurfer-6.0.0/average/rh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs...
reading color table from GCSA file....
average std = 0.9   using min determinant for regularization = 0.009
0 singular and 325 ill-conditioned covariance matrices regularized
input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature
labeling surface...
860 labels changed using aseg
relabeling using gibbs priors...
000:   2153 changed, 152355 examined...
001:    472 changed, 10016 examined...
002:    105 changed, 2681 examined...
003:     47 changed, 670 examined...
004:     15 changed, 289 examined...
005:      6 changed, 91 examined...
006:      3 changed, 36 examined...
007:      1 changed, 15 examined...
008:      0 changed, 7 examined...
65 labels changed using aseg
000: 69 total segments, 36 labels (323 vertices) changed
001: 34 total segments, 1 labels (1 vertices) changed
002: 33 total segments, 0 labels (0 vertices) changed
10 filter iterations complete (10 requested, 11 changed)
rationalizing unknown annotations with cortex label
relabeling unknown label...
relabeling corpuscallosum label...
1703 vertices marked for relabeling...
1703 labels changed in reclassification.
writing output to ../label/rh.aparc.DKTatlas.annot...
classification took 0 minutes and 26 seconds.
#-----------------------------------------
#@# Parcellation Stats 3 lh Thu Jan  9 10:58:39 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_anatomical_stats -th3 -mgz -cortex ../label/lh.cortex.label -f ../stats/lh.aparc.DKTatlas.stats -b -a ../label/lh.aparc.DKTatlas.annot -c ../label/aparc.annot.DKTatlas.ctab 066 lh white

computing statistics for each annotation in ../label/lh.aparc.DKTatlas.annot.
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/wm.mgz...
reading input surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white...
reading input pial surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.pial...
reading input white surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white...
INFO: using TH3 volume calc
INFO: assuming MGZ format for volumes.
INFO: using ../label/lh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness.
Using TH3 vertex volume calc
Total face volume 242017
Total vertex volume 238685 (mask=0)
reading colortable from annotation file...
colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
Saving annotation colortable ../label/aparc.annot.DKTatlas.ctab

table columns are:
    number of vertices
    total surface area (mm^2)
    total gray matter volume (mm^3)
    average cortical thickness +- standard deviation (mm)
    integrated rectified mean curvature
    integrated rectified Gaussian curvature
    folding index
    intrinsic curvature index
    structure name

atlas_icv (eTIV) = 1534407 mm^3    (det: 1.269614 )
lhCtxGM: 235858.017 235818.000  diff=   40.0  pctdiff= 0.017
rhCtxGM: 241318.199 240524.000  diff=  794.2  pctdiff= 0.329
lhCtxWM: 204397.779 204247.000  diff=  150.8  pctdiff= 0.074
rhCtxWM: 222307.320 225001.000  diff=-2693.7  pctdiff=-1.212
SubCortGMVol  52283.000
SupraTentVol  982799.313 (982161.000) diff=638.313 pctdiff=0.065
SupraTentVolNotVent  958939.313 (958301.000) diff=638.313 pctdiff=0.067
BrainSegVol  1113314.000 (1110424.000) diff=2890.000 pctdiff=0.260
BrainSegVolNotVent  1085412.000 (1083648.313) diff=1763.687 pctdiff=0.162
BrainSegVolNotVent  1085412.000
CerebellumVol 127056.000
VentChorVol   23860.000
3rd4th5thCSF   4042.000
CSFVol  1153.000, OptChiasmVol    54.000
MaskVol 1582486.000
 2266   2103   2490  1.249 0.708     0.183     0.058       67     5.6  caudalanteriorcingulate
 4484   2753   7322  2.397 0.556     0.119     0.038       60     7.8  caudalmiddlefrontal
 3823   2401   5140  1.963 0.546     0.132     0.037       53     5.6  cuneus
  706    496   1949  3.000 0.856     0.128     0.031       12     0.8  entorhinal
 3783   2583   7394  2.655 0.588     0.129     0.026       50     3.8  fusiform
 9175   6209  16671  2.362 0.521     0.121     0.026      114     9.7  inferiorparietal
 6229   4147  12651  2.533 0.753     0.139     0.048      112    12.8  inferiortemporal
 1575    977   2369  2.204 0.696     0.128     0.041       26     2.4  isthmuscingulate
 7218   4544  10420  2.023 0.671     0.133     0.034      104    10.5  lateraloccipital
 5170   3439   8979  2.277 0.660     0.135     0.044       81     9.6  lateralorbitofrontal
 6336   3882   8293  1.986 0.640     0.129     0.035       80     9.1  lingual
 2850   1860   4712  2.206 0.710     0.121     0.037       41     4.4  medialorbitofrontal
 7326   4880  15122  2.643 0.648     0.124     0.030       90     9.1  middletemporal
  958    636   1920  2.602 0.674     0.109     0.023       10     0.8  parahippocampal
 2669   1537   4102  2.432 0.741     0.103     0.038       28     4.9  paracentral
 2182   1581   4492  2.435 0.454     0.126     0.032       38     2.7  parsopercularis
 1170    719   1849  2.126 0.626     0.135     0.051       19     2.4  parsorbitalis
 1678   1225   3067  2.225 0.531     0.137     0.029       21     2.1  parstriangularis
 2368   1661   2662  1.758 0.474     0.125     0.029       23     2.9  pericalcarine
 6933   4182   9457  2.072 0.559     0.104     0.029       74     8.6  postcentral
 1963   1333   3286  2.222 0.627     0.140     0.032       33     2.8  posteriorcingulate
 7396   4544  11936  2.461 0.549     0.107     0.032       79    10.5  precentral
 5985   4016   9990  2.315 0.489     0.127     0.026       72     6.4  precuneus
 1883   1436   2738  1.965 1.029     0.147     0.046       37     3.8  rostralanteriorcingulate
 5797   3922  10338  2.202 0.583     0.140     0.049       98    14.1  rostralmiddlefrontal
13135  10199  27282  2.381 0.648     0.142     0.039      221    21.8  superiorfrontal
 7846   5088  12500  2.163 0.516     0.113     0.030       92     9.3  superiorparietal
 6416   4593  15184  2.688 0.724     0.119     0.032       80     8.3  superiortemporal
 4267   2884   7618  2.386 0.526     0.129     0.032       59     5.8  supramarginal
  611    377   1041  2.528 0.450     0.113     0.028        7     0.6  transversetemporal
 2795   1933   5711  2.731 0.767     0.116     0.034       30     3.9  insula
#-----------------------------------------
#@# Parcellation Stats 3 rh Thu Jan  9 10:59:52 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_anatomical_stats -th3 -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.DKTatlas.stats -b -a ../label/rh.aparc.DKTatlas.annot -c ../label/aparc.annot.DKTatlas.ctab 066 rh white

computing statistics for each annotation in ../label/rh.aparc.DKTatlas.annot.
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/wm.mgz...
reading input surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white...
reading input pial surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.pial...
reading input white surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white...
INFO: using TH3 volume calc
INFO: assuming MGZ format for volumes.
INFO: using ../label/rh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness.
Using TH3 vertex volume calc
Total face volume 245262
Total vertex volume 241762 (mask=0)
reading colortable from annotation file...
colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
Saving annotation colortable ../label/aparc.annot.DKTatlas.ctab

table columns are:
    number of vertices
    total surface area (mm^2)
    total gray matter volume (mm^3)
    average cortical thickness +- standard deviation (mm)
    integrated rectified mean curvature
    integrated rectified Gaussian curvature
    folding index
    intrinsic curvature index
    structure name

atlas_icv (eTIV) = 1534407 mm^3    (det: 1.269614 )
lhCtxGM: 235858.017 235818.000  diff=   40.0  pctdiff= 0.017
rhCtxGM: 241318.199 240524.000  diff=  794.2  pctdiff= 0.329
lhCtxWM: 204397.779 204247.000  diff=  150.8  pctdiff= 0.074
rhCtxWM: 222307.320 225001.000  diff=-2693.7  pctdiff=-1.212
SubCortGMVol  52283.000
SupraTentVol  982799.313 (982161.000) diff=638.313 pctdiff=0.065
SupraTentVolNotVent  958939.313 (958301.000) diff=638.313 pctdiff=0.067
BrainSegVol  1113314.000 (1110424.000) diff=2890.000 pctdiff=0.260
BrainSegVolNotVent  1085412.000 (1083648.313) diff=1763.687 pctdiff=0.162
BrainSegVolNotVent  1085412.000
CerebellumVol 127056.000
VentChorVol   23860.000
3rd4th5thCSF   4042.000
CSFVol  1153.000, OptChiasmVol    54.000
MaskVol 1582486.000
 1906   1374   2862  1.693 1.024     0.148     0.047       49     3.8  caudalanteriorcingulate
 4482   2806   6885  2.270 0.543     0.122     0.042       60     8.6  caudalmiddlefrontal
 3610   2234   4671  1.916 0.512     0.132     0.032       48     4.5  cuneus
  501    344   1775  3.437 0.616     0.128     0.026        6     0.5  entorhinal
 4495   2987   8242  2.533 0.585     0.120     0.030       70     5.3  fusiform
 9831   6565  16353  2.264 0.472     0.119     0.029      128    11.2  inferiorparietal
 5960   4049  12263  2.560 0.798     0.133     0.040      107    10.1  inferiortemporal
 1438    931   2715  2.480 0.747     0.149     0.043       27     2.6  isthmuscingulate
 8327   5193  12119  2.082 0.604     0.133     0.039      117    12.9  lateraloccipital
 5589   3683   9015  2.195 0.743     0.146     0.049      102    11.3  lateralorbitofrontal
 6194   3887   7855  1.887 0.591     0.134     0.034       87     9.3  lingual
 2297   1564   4490  2.325 0.656     0.132     0.046       45     4.7  medialorbitofrontal
 6931   4595  13495  2.510 0.648     0.126     0.036      102    10.8  middletemporal
 1333    764   2096  2.401 0.627     0.095     0.026       13     1.4  parahippocampal
 2733   1570   4241  2.459 0.608     0.103     0.046       45     5.6  paracentral
 3007   1892   4820  2.291 0.486     0.121     0.037       45     4.8  parsopercularis
 1099    750   2224  2.343 0.640     0.130     0.031       15     1.5  parsorbitalis
 2921   1873   4322  2.073 0.484     0.129     0.045       52     4.5  parstriangularis
 2755   1845   2804  1.655 0.482     0.134     0.034       29     4.1  pericalcarine
 6852   4189   8901  1.933 0.589     0.101     0.029       74     9.1  postcentral
 1726   1225   3099  2.304 0.698     0.133     0.030       23     2.2  posteriorcingulate
 8368   4804  12245  2.421 0.617     0.110     0.040      119    13.8  precentral
 6004   4018  10414  2.374 0.538     0.120     0.026       74     6.1  precuneus
 1286    821   2253  2.413 0.979     0.121     0.032       16     1.7  rostralanteriorcingulate
 8284   5488  13567  2.103 0.590     0.134     0.043      140    14.7  rostralmiddlefrontal
13607   9207  25800  2.437 0.609     0.127     0.034      190    18.6  superiorfrontal
 7677   4992  12186  2.152 0.532     0.118     0.030       99    10.1  superiorparietal
 6718   4621  14332  2.536 0.757     0.114     0.027       70     7.1  superiortemporal
 4924   3247   8576  2.358 0.495     0.120     0.029       64     5.9  supramarginal
  707    333   1078  2.591 0.512     0.093     0.033        7     1.0  transversetemporal
 3142   2175   6063  2.632 0.805     0.113     0.029       30     3.6  insula
#-----------------------------------------
#@# WM/GM Contrast lh Thu Jan  9 11:01:16 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 pctsurfcon --s 066 --lh-only

Log file is /study2/emowrap/data/freesurfer/subjects/066/scripts/pctsurfcon.log
Thu Jan  9 11:01:17 CST 2020
setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/scripts
/apps/x86_64_sci7/freesurfer-6.0.0/bin/pctsurfcon
$Id: pctsurfcon,v 1.15 2016/02/12 21:43:15 zkaufman Exp $
Linux c137.keck.waisman.wisc.edu 3.10.0-1062.9.1.el7.x86_64 #1 SMP Thu Dec 5 14:44:59 CST 2019 x86_64 x86_64 x86_64 GNU/Linux
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
mri_vol2surf --mov /study2/emowrap/data/freesurfer/subjects/066/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --projdist -1 --o /study2/emowrap/data/freesurfer/subjects/066/surf/tmp.pctsurfcon.12138/lh.wm.mgh --regheader 066 --cortex
srcvol = /study2/emowrap/data/freesurfer/subjects/066/mri/rawavg.mgz
srcreg unspecified
srcregold = 0
srcwarp unspecified
surf = white
hemi = lh
ProjDist = -1
reshape = 0
interp = trilinear
float2int = round
GetProjMax = 0
INFO: float2int code = 0
Done loading volume
Computing registration from header.
  Using /study2/emowrap/data/freesurfer/subjects/066/mri/orig.mgz as target reference.
-------- original matrix -----------
-1.00000   0.00000   0.00000   0.00000;
 0.00000   0.00000   1.00000  -0.00001;
 0.00000  -1.00000   0.00000   0.00000;
 0.00000   0.00000   0.00000   1.00000;
-------- original matrix -----------
Loading label /study2/emowrap/data/freesurfer/subjects/066/label/lh.cortex.label
Reading surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Done reading source surface
Mapping Source Volume onto Source Subject Surface
 1 -1 -1 -1
using old
Done mapping volume to surface
Number of source voxels hit = 76949
Masking with /study2/emowrap/data/freesurfer/subjects/066/label/lh.cortex.label
Writing to /study2/emowrap/data/freesurfer/subjects/066/surf/tmp.pctsurfcon.12138/lh.wm.mgh
Dim: 144925 1 1
mri_vol2surf --mov /study2/emowrap/data/freesurfer/subjects/066/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --o /study2/emowrap/data/freesurfer/subjects/066/surf/tmp.pctsurfcon.12138/lh.gm.mgh --projfrac 0.3 --regheader 066 --cortex
srcvol = /study2/emowrap/data/freesurfer/subjects/066/mri/rawavg.mgz
srcreg unspecified
srcregold = 0
srcwarp unspecified
surf = white
hemi = lh
ProjFrac = 0.3
thickness = thickness
reshape = 0
interp = trilinear
float2int = round
GetProjMax = 0
INFO: float2int code = 0
Done loading volume
Computing registration from header.
  Using /study2/emowrap/data/freesurfer/subjects/066/mri/orig.mgz as target reference.
-------- original matrix -----------
-1.00000   0.00000   0.00000   0.00000;
 0.00000   0.00000   1.00000  -0.00001;
 0.00000  -1.00000   0.00000   0.00000;
 0.00000   0.00000   0.00000   1.00000;
-------- original matrix -----------
Loading label /study2/emowrap/data/freesurfer/subjects/066/label/lh.cortex.label
Reading surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Done reading source surface
Reading thickness /study2/emowrap/data/freesurfer/subjects/066/surf/lh.thickness
Done
Mapping Source Volume onto Source Subject Surface
 1 0.3 0.3 0.3
using old
Done mapping volume to surface
Number of source voxels hit = 94551
Masking with /study2/emowrap/data/freesurfer/subjects/066/label/lh.cortex.label
Writing to /study2/emowrap/data/freesurfer/subjects/066/surf/tmp.pctsurfcon.12138/lh.gm.mgh
Dim: 144925 1 1
mri_concat /study2/emowrap/data/freesurfer/subjects/066/surf/tmp.pctsurfcon.12138/lh.wm.mgh /study2/emowrap/data/freesurfer/subjects/066/surf/tmp.pctsurfcon.12138/lh.gm.mgh --paired-diff-norm --mul 100 --o /study2/emowrap/data/freesurfer/subjects/066/surf/lh.w-g.pct.mgh
ninputs = 2
Checking inputs
nframestot = 2
Allocing output
Done allocing
Combining pairs
nframes = 1
Multiplying by 100.000000
Writing to /study2/emowrap/data/freesurfer/subjects/066/surf/lh.w-g.pct.mgh
mri_segstats --in /study2/emowrap/data/freesurfer/subjects/066/surf/lh.w-g.pct.mgh --annot 066 lh aparc --sum /study2/emowrap/data/freesurfer/subjects/066/stats/lh.w-g.pct.stats --snr

$Id: mri_segstats.c,v 1.121 2016/05/31 17:27:11 greve Exp $
cwd
cmdline mri_segstats --in /study2/emowrap/data/freesurfer/subjects/066/surf/lh.w-g.pct.mgh --annot 066 lh aparc --sum /study2/emowrap/data/freesurfer/subjects/066/stats/lh.w-g.pct.stats --snr
sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
UseRobust  0
Constructing seg from annotation

Reading annotation /study2/emowrap/data/freesurfer/subjects/066/label/lh.aparc.annot
reading colortable from annotation file...
colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
Seg base 1000
Loading /study2/emowrap/data/freesurfer/subjects/066/surf/lh.w-g.pct.mgh
Vertex Area is 0.672276 mm^3
Generating list of segmentation ids
Found  36 segmentations
Computing statistics for each segmentation

Reporting on  35 segmentations
Using PrintSegStat
mri_segstats done
Cleaning up
#-----------------------------------------
#@# WM/GM Contrast rh Thu Jan  9 11:01:27 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 pctsurfcon --s 066 --rh-only

Log file is /study2/emowrap/data/freesurfer/subjects/066/scripts/pctsurfcon.log
Thu Jan  9 11:01:27 CST 2020
setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/scripts
/apps/x86_64_sci7/freesurfer-6.0.0/bin/pctsurfcon
$Id: pctsurfcon,v 1.15 2016/02/12 21:43:15 zkaufman Exp $
Linux c137.keck.waisman.wisc.edu 3.10.0-1062.9.1.el7.x86_64 #1 SMP Thu Dec 5 14:44:59 CST 2019 x86_64 x86_64 x86_64 GNU/Linux
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
mri_vol2surf --mov /study2/emowrap/data/freesurfer/subjects/066/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --projdist -1 --o /study2/emowrap/data/freesurfer/subjects/066/surf/tmp.pctsurfcon.12191/rh.wm.mgh --regheader 066 --cortex
srcvol = /study2/emowrap/data/freesurfer/subjects/066/mri/rawavg.mgz
srcreg unspecified
srcregold = 0
srcwarp unspecified
surf = white
hemi = rh
ProjDist = -1
reshape = 0
interp = trilinear
float2int = round
GetProjMax = 0
INFO: float2int code = 0
Done loading volume
Computing registration from header.
  Using /study2/emowrap/data/freesurfer/subjects/066/mri/orig.mgz as target reference.
-------- original matrix -----------
-1.00000   0.00000   0.00000   0.00000;
 0.00000   0.00000   1.00000  -0.00001;
 0.00000  -1.00000   0.00000   0.00000;
 0.00000   0.00000   0.00000   1.00000;
-------- original matrix -----------
Loading label /study2/emowrap/data/freesurfer/subjects/066/label/rh.cortex.label
Reading surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Done reading source surface
Mapping Source Volume onto Source Subject Surface
 1 -1 -1 -1
using old
Done mapping volume to surface
Number of source voxels hit = 80494
Masking with /study2/emowrap/data/freesurfer/subjects/066/label/rh.cortex.label
Writing to /study2/emowrap/data/freesurfer/subjects/066/surf/tmp.pctsurfcon.12191/rh.wm.mgh
Dim: 152355 1 1
mri_vol2surf --mov /study2/emowrap/data/freesurfer/subjects/066/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --o /study2/emowrap/data/freesurfer/subjects/066/surf/tmp.pctsurfcon.12191/rh.gm.mgh --projfrac 0.3 --regheader 066 --cortex
srcvol = /study2/emowrap/data/freesurfer/subjects/066/mri/rawavg.mgz
srcreg unspecified
srcregold = 0
srcwarp unspecified
surf = white
hemi = rh
ProjFrac = 0.3
thickness = thickness
reshape = 0
interp = trilinear
float2int = round
GetProjMax = 0
INFO: float2int code = 0
Done loading volume
Computing registration from header.
  Using /study2/emowrap/data/freesurfer/subjects/066/mri/orig.mgz as target reference.
-------- original matrix -----------
-1.00000   0.00000   0.00000   0.00000;
 0.00000   0.00000   1.00000  -0.00001;
 0.00000  -1.00000   0.00000   0.00000;
 0.00000   0.00000   0.00000   1.00000;
-------- original matrix -----------
Loading label /study2/emowrap/data/freesurfer/subjects/066/label/rh.cortex.label
Reading surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Done reading source surface
Reading thickness /study2/emowrap/data/freesurfer/subjects/066/surf/rh.thickness
Done
Mapping Source Volume onto Source Subject Surface
 1 0.3 0.3 0.3
using old
Done mapping volume to surface
Number of source voxels hit = 99347
Masking with /study2/emowrap/data/freesurfer/subjects/066/label/rh.cortex.label
Writing to /study2/emowrap/data/freesurfer/subjects/066/surf/tmp.pctsurfcon.12191/rh.gm.mgh
Dim: 152355 1 1
mri_concat /study2/emowrap/data/freesurfer/subjects/066/surf/tmp.pctsurfcon.12191/rh.wm.mgh /study2/emowrap/data/freesurfer/subjects/066/surf/tmp.pctsurfcon.12191/rh.gm.mgh --paired-diff-norm --mul 100 --o /study2/emowrap/data/freesurfer/subjects/066/surf/rh.w-g.pct.mgh
ninputs = 2
Checking inputs
nframestot = 2
Allocing output
Done allocing
Combining pairs
nframes = 1
Multiplying by 100.000000
Writing to /study2/emowrap/data/freesurfer/subjects/066/surf/rh.w-g.pct.mgh
mri_segstats --in /study2/emowrap/data/freesurfer/subjects/066/surf/rh.w-g.pct.mgh --annot 066 rh aparc --sum /study2/emowrap/data/freesurfer/subjects/066/stats/rh.w-g.pct.stats --snr

$Id: mri_segstats.c,v 1.121 2016/05/31 17:27:11 greve Exp $
cwd
cmdline mri_segstats --in /study2/emowrap/data/freesurfer/subjects/066/surf/rh.w-g.pct.mgh --annot 066 rh aparc --sum /study2/emowrap/data/freesurfer/subjects/066/stats/rh.w-g.pct.stats --snr
sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
UseRobust  0
Constructing seg from annotation

Reading annotation /study2/emowrap/data/freesurfer/subjects/066/label/rh.aparc.annot
reading colortable from annotation file...
colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
Seg base 2000
Loading /study2/emowrap/data/freesurfer/subjects/066/surf/rh.w-g.pct.mgh
Vertex Area is 0.650351 mm^3
Generating list of segmentation ids
Found  36 segmentations
Computing statistics for each segmentation

Reporting on  35 segmentations
Using PrintSegStat
mri_segstats done
Cleaning up
#-----------------------------------------
#@# Relabel Hypointensities Thu Jan  9 11:01:37 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/mri

 mri_relabel_hypointensities aseg.presurf.mgz ../surf aseg.presurf.hypos.mgz

reading input surface ../surf/lh.white...
relabeling lh hypointensities...
4019 voxels changed to hypointensity...
reading input surface ../surf/rh.white...
relabeling rh hypointensities...
3239 voxels changed to hypointensity...
7465 hypointense voxels neighboring cortex changed
#-----------------------------------------
#@# AParc-to-ASeg aparc Thu Jan  9 11:02:16 CST 2020
/study2/emowrap/data/freesurfer/subjects/066

 mri_aparc2aseg --s 066 --volmask --aseg aseg.presurf.hypos --relabel mri/norm.mgz mri/transforms/talairach.m3z /apps/x86_64_sci7/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca mri/aseg.auto_noCCseg.label_intensities.txt

relabeling unlikely voxels interior to white matter surface:
	norm: mri/norm.mgz
	 XFORM: mri/transforms/talairach.m3z
	GCA: /apps/x86_64_sci7/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca
	label intensities: mri/aseg.auto_noCCseg.label_intensities.txt
SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
subject 066
outvol /study2/emowrap/data/freesurfer/subjects/066/mri/aparc+aseg.mgz
useribbon 0
baseoffset 0
RipUnknown 0

Reading lh white surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white

Reading lh pial surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.pial

Loading lh annotations from /study2/emowrap/data/freesurfer/subjects/066/label/lh.aparc.annot
reading colortable from annotation file...
colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)

Reading rh white surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white

Reading rh pial surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.pial

Loading rh annotations from /study2/emowrap/data/freesurfer/subjects/066/label/rh.aparc.annot
reading colortable from annotation file...
colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
Have color table for lh white annotation
Have color table for rh white annotation
Loading ribbon segmentation from /study2/emowrap/data/freesurfer/subjects/066/mri/ribbon.mgz

Building hash of lh white

Building hash of lh pial

Building hash of rh white

Building hash of rh pial

Loading aseg from /study2/emowrap/data/freesurfer/subjects/066/mri/aseg.presurf.hypos.mgz
ASeg Vox2RAS: -----------
-1.00000   0.00000   0.00000   128.00000;
 0.00000   0.00000   1.00000  -128.00000;
 0.00000  -1.00000   0.00000   128.00000;
 0.00000   0.00000   0.00000   1.00000;
-------------------------

Labeling Slice
relabeling unlikely voxels in interior of white matter
setting orig areas to linear transform determinant scaled 6.73
reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt
rescaling Left_Cerebral_White_Matter from 107 --> 103
rescaling Left_Cerebral_Cortex from 61 --> 68
rescaling Left_Lateral_Ventricle from 13 --> 17
rescaling Left_Inf_Lat_Vent from 34 --> 33
rescaling Left_Cerebellum_White_Matter from 86 --> 88
rescaling Left_Cerebellum_Cortex from 60 --> 63
rescaling Left_Thalamus from 94 --> 100
rescaling Left_Thalamus_Proper from 84 --> 84
rescaling Left_Caudate from 75 --> 61
rescaling Left_Putamen from 80 --> 84
rescaling Left_Pallidum from 98 --> 99
rescaling Third_Ventricle from 25 --> 25
rescaling Fourth_Ventricle from 22 --> 16
rescaling Brain_Stem from 81 --> 87
rescaling Left_Hippocampus from 57 --> 58
rescaling Left_Amygdala from 56 --> 60
rescaling CSF from 32 --> 35
rescaling Left_Accumbens_area from 62 --> 55
rescaling Left_VentralDC from 87 --> 89
rescaling Right_Cerebral_White_Matter from 105 --> 101
rescaling Right_Cerebral_Cortex from 58 --> 68
rescaling Right_Lateral_Ventricle from 13 --> 15
rescaling Right_Inf_Lat_Vent from 25 --> 24
rescaling Right_Cerebellum_White_Matter from 87 --> 85
rescaling Right_Cerebellum_Cortex from 59 --> 66
rescaling Right_Thalamus_Proper from 85 --> 81
rescaling Right_Caudate from 62 --> 66
rescaling Right_Putamen from 80 --> 83
rescaling Right_Pallidum from 97 --> 99
rescaling Right_Hippocampus from 53 --> 58
rescaling Right_Amygdala from 55 --> 58
rescaling Right_Accumbens_area from 65 --> 65
rescaling Right_VentralDC from 86 --> 94
rescaling Fifth_Ventricle from 40 --> 31
rescaling WM_hypointensities from 78 --> 76
rescaling non_WM_hypointensities from 40 --> 54
  0   1   2   3   4   5   6   7   8   9  10  11  12  13  14  15  16  17  18  19
 20  21  22  23  24  25  26  27  28  29  30  31  32  33  34  35  36  37  38  39
 40  41  42  43  44  45  46  47  48  49  50  51  52  53  54  55  56  57  58  59
 60  61  62  63  64  65  66  67  68  69  70  71  72  73  74  75  76  77  78  79
 80  81  82  83  84  85  86  87  88  89  90  91  92  93  94  95  96  97  98  99
100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119
120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139
140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159
160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179
180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199
200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219
220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239
240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 nctx = 475304
Used brute-force search on 0 voxels
relabeling unlikely voxels in interior of white matter
average std[0] = 7.3
pass 1: 1252 changed.
pass 2: 152 changed.
pass 3: 6 changed.
pass 4: 2 changed.
pass 5: 1 changed.
pass 6: 0 changed.
nchanged = 0
Writing output aseg to /study2/emowrap/data/freesurfer/subjects/066/mri/aparc+aseg.mgz
#-----------------------------------------
#@# AParc-to-ASeg a2009s Thu Jan  9 11:10:09 CST 2020
/study2/emowrap/data/freesurfer/subjects/066

 mri_aparc2aseg --s 066 --volmask --aseg aseg.presurf.hypos --relabel mri/norm.mgz mri/transforms/talairach.m3z /apps/x86_64_sci7/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca mri/aseg.auto_noCCseg.label_intensities.txt --a2009s

relabeling unlikely voxels interior to white matter surface:
	norm: mri/norm.mgz
	 XFORM: mri/transforms/talairach.m3z
	GCA: /apps/x86_64_sci7/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca
	label intensities: mri/aseg.auto_noCCseg.label_intensities.txt
SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
subject 066
outvol /study2/emowrap/data/freesurfer/subjects/066/mri/aparc.a2009s+aseg.mgz
useribbon 0
baseoffset 10100
RipUnknown 0

Reading lh white surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white

Reading lh pial surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.pial

Loading lh annotations from /study2/emowrap/data/freesurfer/subjects/066/label/lh.aparc.a2009s.annot
reading colortable from annotation file...
colortable with 76 entries read (originally Simple_surface_labels2008.txt)

Reading rh white surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white

Reading rh pial surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.pial

Loading rh annotations from /study2/emowrap/data/freesurfer/subjects/066/label/rh.aparc.a2009s.annot
reading colortable from annotation file...
colortable with 76 entries read (originally Simple_surface_labels2008.txt)
Have color table for lh white annotation
Have color table for rh white annotation
Loading ribbon segmentation from /study2/emowrap/data/freesurfer/subjects/066/mri/ribbon.mgz

Building hash of lh white

Building hash of lh pial

Building hash of rh white

Building hash of rh pial

Loading aseg from /study2/emowrap/data/freesurfer/subjects/066/mri/aseg.presurf.hypos.mgz
ASeg Vox2RAS: -----------
-1.00000   0.00000   0.00000   128.00000;
 0.00000   0.00000   1.00000  -128.00000;
 0.00000  -1.00000   0.00000   128.00000;
 0.00000   0.00000   0.00000   1.00000;
-------------------------

Labeling Slice
relabeling unlikely voxels in interior of white matter
setting orig areas to linear transform determinant scaled 6.73
reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt
rescaling Left_Cerebral_White_Matter from 107 --> 103
rescaling Left_Cerebral_Cortex from 61 --> 68
rescaling Left_Lateral_Ventricle from 13 --> 17
rescaling Left_Inf_Lat_Vent from 34 --> 33
rescaling Left_Cerebellum_White_Matter from 86 --> 88
rescaling Left_Cerebellum_Cortex from 60 --> 63
rescaling Left_Thalamus from 94 --> 100
rescaling Left_Thalamus_Proper from 84 --> 84
rescaling Left_Caudate from 75 --> 61
rescaling Left_Putamen from 80 --> 84
rescaling Left_Pallidum from 98 --> 99
rescaling Third_Ventricle from 25 --> 25
rescaling Fourth_Ventricle from 22 --> 16
rescaling Brain_Stem from 81 --> 87
rescaling Left_Hippocampus from 57 --> 58
rescaling Left_Amygdala from 56 --> 60
rescaling CSF from 32 --> 35
rescaling Left_Accumbens_area from 62 --> 55
rescaling Left_VentralDC from 87 --> 89
rescaling Right_Cerebral_White_Matter from 105 --> 101
rescaling Right_Cerebral_Cortex from 58 --> 68
rescaling Right_Lateral_Ventricle from 13 --> 15
rescaling Right_Inf_Lat_Vent from 25 --> 24
rescaling Right_Cerebellum_White_Matter from 87 --> 85
rescaling Right_Cerebellum_Cortex from 59 --> 66
rescaling Right_Thalamus_Proper from 85 --> 81
rescaling Right_Caudate from 62 --> 66
rescaling Right_Putamen from 80 --> 83
rescaling Right_Pallidum from 97 --> 99
rescaling Right_Hippocampus from 53 --> 58
rescaling Right_Amygdala from 55 --> 58
rescaling Right_Accumbens_area from 65 --> 65
rescaling Right_VentralDC from 86 --> 94
rescaling Fifth_Ventricle from 40 --> 31
rescaling WM_hypointensities from 78 --> 76
rescaling non_WM_hypointensities from 40 --> 54
  0   1   2   3   4   5   6   7   8   9  10  11  12  13  14  15  16  17  18  19
 20  21  22  23  24  25  26  27  28  29  30  31  32  33  34  35  36  37  38  39
 40  41  42  43  44  45  46  47  48  49  50  51  52  53  54  55  56  57  58  59
 60  61  62  63  64  65  66  67  68  69  70  71  72  73  74  75  76  77  78  79
 80  81  82  83  84  85  86  87  88  89  90  91  92  93  94  95  96  97  98  99
100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119
120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139
140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159
160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179
180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199
200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219
220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239
240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 nctx = 475392
Used brute-force search on 0 voxels
relabeling unlikely voxels in interior of white matter
average std[0] = 7.3
pass 1: 1254 changed.
pass 2: 152 changed.
pass 3: 6 changed.
pass 4: 5 changed.
pass 5: 1 changed.
pass 6: 0 changed.
nchanged = 0
Writing output aseg to /study2/emowrap/data/freesurfer/subjects/066/mri/aparc.a2009s+aseg.mgz
#-----------------------------------------
#@# AParc-to-ASeg DKTatlas Thu Jan  9 11:17:56 CST 2020
/study2/emowrap/data/freesurfer/subjects/066

 mri_aparc2aseg --s 066 --volmask --aseg aseg.presurf.hypos --relabel mri/norm.mgz mri/transforms/talairach.m3z /apps/x86_64_sci7/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca mri/aseg.auto_noCCseg.label_intensities.txt --annot aparc.DKTatlas --o mri/aparc.DKTatlas+aseg.mgz

relabeling unlikely voxels interior to white matter surface:
	norm: mri/norm.mgz
	 XFORM: mri/transforms/talairach.m3z
	GCA: /apps/x86_64_sci7/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca
	label intensities: mri/aseg.auto_noCCseg.label_intensities.txt
SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
subject 066
outvol mri/aparc.DKTatlas+aseg.mgz
useribbon 0
baseoffset 0
RipUnknown 0

Reading lh white surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white

Reading lh pial surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.pial

Loading lh annotations from /study2/emowrap/data/freesurfer/subjects/066/label/lh.aparc.DKTatlas.annot
reading colortable from annotation file...
colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)

Reading rh white surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white

Reading rh pial surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.pial

Loading rh annotations from /study2/emowrap/data/freesurfer/subjects/066/label/rh.aparc.DKTatlas.annot
reading colortable from annotation file...
colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
Have color table for lh white annotation
Have color table for rh white annotation
Loading ribbon segmentation from /study2/emowrap/data/freesurfer/subjects/066/mri/ribbon.mgz

Building hash of lh white

Building hash of lh pial

Building hash of rh white

Building hash of rh pial

Loading aseg from /study2/emowrap/data/freesurfer/subjects/066/mri/aseg.presurf.hypos.mgz
ASeg Vox2RAS: -----------
-1.00000   0.00000   0.00000   128.00000;
 0.00000   0.00000   1.00000  -128.00000;
 0.00000  -1.00000   0.00000   128.00000;
 0.00000   0.00000   0.00000   1.00000;
-------------------------

Labeling Slice
relabeling unlikely voxels in interior of white matter
setting orig areas to linear transform determinant scaled 6.73
reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt
rescaling Left_Cerebral_White_Matter from 107 --> 103
rescaling Left_Cerebral_Cortex from 61 --> 68
rescaling Left_Lateral_Ventricle from 13 --> 17
rescaling Left_Inf_Lat_Vent from 34 --> 33
rescaling Left_Cerebellum_White_Matter from 86 --> 88
rescaling Left_Cerebellum_Cortex from 60 --> 63
rescaling Left_Thalamus from 94 --> 100
rescaling Left_Thalamus_Proper from 84 --> 84
rescaling Left_Caudate from 75 --> 61
rescaling Left_Putamen from 80 --> 84
rescaling Left_Pallidum from 98 --> 99
rescaling Third_Ventricle from 25 --> 25
rescaling Fourth_Ventricle from 22 --> 16
rescaling Brain_Stem from 81 --> 87
rescaling Left_Hippocampus from 57 --> 58
rescaling Left_Amygdala from 56 --> 60
rescaling CSF from 32 --> 35
rescaling Left_Accumbens_area from 62 --> 55
rescaling Left_VentralDC from 87 --> 89
rescaling Right_Cerebral_White_Matter from 105 --> 101
rescaling Right_Cerebral_Cortex from 58 --> 68
rescaling Right_Lateral_Ventricle from 13 --> 15
rescaling Right_Inf_Lat_Vent from 25 --> 24
rescaling Right_Cerebellum_White_Matter from 87 --> 85
rescaling Right_Cerebellum_Cortex from 59 --> 66
rescaling Right_Thalamus_Proper from 85 --> 81
rescaling Right_Caudate from 62 --> 66
rescaling Right_Putamen from 80 --> 83
rescaling Right_Pallidum from 97 --> 99
rescaling Right_Hippocampus from 53 --> 58
rescaling Right_Amygdala from 55 --> 58
rescaling Right_Accumbens_area from 65 --> 65
rescaling Right_VentralDC from 86 --> 94
rescaling Fifth_Ventricle from 40 --> 31
rescaling WM_hypointensities from 78 --> 76
rescaling non_WM_hypointensities from 40 --> 54
  0   1   2   3   4   5   6   7   8   9  10  11  12  13  14  15  16  17  18  19
 20  21  22  23  24  25  26  27  28  29  30  31  32  33  34  35  36  37  38  39
 40  41  42  43  44  45  46  47  48  49  50  51  52  53  54  55  56  57  58  59
 60  61  62  63  64  65  66  67  68  69  70  71  72  73  74  75  76  77  78  79
 80  81  82  83  84  85  86  87  88  89  90  91  92  93  94  95  96  97  98  99
100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119
120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139
140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159
160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179
180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199
200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219
220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239
240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 nctx = 475392
Used brute-force search on 0 voxels
relabeling unlikely voxels in interior of white matter
average std[0] = 7.3
pass 1: 1254 changed.
pass 2: 152 changed.
pass 3: 6 changed.
pass 4: 5 changed.
pass 5: 1 changed.
pass 6: 0 changed.
nchanged = 0
Writing output aseg to mri/aparc.DKTatlas+aseg.mgz
#-----------------------------------------
#@# APas-to-ASeg Thu Jan  9 11:25:44 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/mri

 apas2aseg --i aparc+aseg.mgz --o aseg.mgz

Thu Jan  9 11:25:44 CST 2020

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/mri
/apps/x86_64_sci7/freesurfer-6.0.0/bin/apas2aseg --i aparc+aseg.mgz --o aseg.mgz

freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c
$Id: apas2aseg,v 1.2 2016/02/12 21:43:14 zkaufman Exp $
Linux c137.keck.waisman.wisc.edu 3.10.0-1062.9.1.el7.x86_64 #1 SMP Thu Dec 5 14:44:59 CST 2019 x86_64 x86_64 x86_64 GNU/Linux
mri_binarize --i aparc+aseg.mgz --o aseg.mgz --replace 1000 3 --replace 2000 42 --replace 1001 3 --replace 2001 42 --replace 1002 3 --replace 2002 42 --replace 1003 3 --replace 2003 42 --replace 1004 3 --replace 2004 42 --replace 1005 3 --replace 2005 42 --replace 1006 3 --replace 2006 42 --replace 1007 3 --replace 2007 42 --replace 1008 3 --replace 2008 42 --replace 1009 3 --replace 2009 42 --replace 1010 3 --replace 2010 42 --replace 1011 3 --replace 2011 42 --replace 1012 3 --replace 2012 42 --replace 1013 3 --replace 2013 42 --replace 1014 3 --replace 2014 42 --replace 1015 3 --replace 2015 42 --replace 1016 3 --replace 2016 42 --replace 1017 3 --replace 2017 42 --replace 1018 3 --replace 2018 42 --replace 1019 3 --replace 2019 42 --replace 1020 3 --replace 2020 42 --replace 1021 3 --replace 2021 42 --replace 1022 3 --replace 2022 42 --replace 1023 3 --replace 2023 42 --replace 1024 3 --replace 2024 42 --replace 1025 3 --replace 2025 42 --replace 1026 3 --replace 2026 42 --replace 1027 3 --replace 2027 42 --replace 1028 3 --replace 2028 42 --replace 1029 3 --replace 2029 42 --replace 1030 3 --replace 2030 42 --replace 1031 3 --replace 2031 42 --replace 1032 3 --replace 2032 42 --replace 1033 3 --replace 2033 42 --replace 1034 3 --replace 2034 42 --replace 1035 3 --replace 2035 42

$Id: mri_binarize.c,v 1.43 2016/06/09 20:46:21 greve Exp $
cwd /study2/emowrap/data/freesurfer/subjects/066/mri
cmdline mri_binarize.bin --i aparc+aseg.mgz --o aseg.mgz --replace 1000 3 --replace 2000 42 --replace 1001 3 --replace 2001 42 --replace 1002 3 --replace 2002 42 --replace 1003 3 --replace 2003 42 --replace 1004 3 --replace 2004 42 --replace 1005 3 --replace 2005 42 --replace 1006 3 --replace 2006 42 --replace 1007 3 --replace 2007 42 --replace 1008 3 --replace 2008 42 --replace 1009 3 --replace 2009 42 --replace 1010 3 --replace 2010 42 --replace 1011 3 --replace 2011 42 --replace 1012 3 --replace 2012 42 --replace 1013 3 --replace 2013 42 --replace 1014 3 --replace 2014 42 --replace 1015 3 --replace 2015 42 --replace 1016 3 --replace 2016 42 --replace 1017 3 --replace 2017 42 --replace 1018 3 --replace 2018 42 --replace 1019 3 --replace 2019 42 --replace 1020 3 --replace 2020 42 --replace 1021 3 --replace 2021 42 --replace 1022 3 --replace 2022 42 --replace 1023 3 --replace 2023 42 --replace 1024 3 --replace 2024 42 --replace 1025 3 --replace 2025 42 --replace 1026 3 --replace 2026 42 --replace 1027 3 --replace 2027 42 --replace 1028 3 --replace 2028 42 --replace 1029 3 --replace 2029 42 --replace 1030 3 --replace 2030 42 --replace 1031 3 --replace 2031 42 --replace 1032 3 --replace 2032 42 --replace 1033 3 --replace 2033 42 --replace 1034 3 --replace 2034 42 --replace 1035 3 --replace 2035 42
sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan

input      aparc+aseg.mgz
frame      0
nErode3d   0
nErode2d   0
output     aseg.mgz
Binarizing based on threshold
min        -infinity
max        +infinity
binval        1
binvalnot     0
fstart = 0, fend = 0, nframes = 1
Replacing 72
 1:  1000    3
 2:  2000   42
 3:  1001    3
 4:  2001   42
 5:  1002    3
 6:  2002   42
 7:  1003    3
 8:  2003   42
 9:  1004    3
10:  2004   42
11:  1005    3
12:  2005   42
13:  1006    3
14:  2006   42
15:  1007    3
16:  2007   42
17:  1008    3
18:  2008   42
19:  1009    3
20:  2009   42
21:  1010    3
22:  2010   42
23:  1011    3
24:  2011   42
25:  1012    3
26:  2012   42
27:  1013    3
28:  2013   42
29:  1014    3
30:  2014   42
31:  1015    3
32:  2015   42
33:  1016    3
34:  2016   42
35:  1017    3
36:  2017   42
37:  1018    3
38:  2018   42
39:  1019    3
40:  2019   42
41:  1020    3
42:  2020   42
43:  1021    3
44:  2021   42
45:  1022    3
46:  2022   42
47:  1023    3
48:  2023   42
49:  1024    3
50:  2024   42
51:  1025    3
52:  2025   42
53:  1026    3
54:  2026   42
55:  1027    3
56:  2027   42
57:  1028    3
58:  2028   42
59:  1029    3
60:  2029   42
61:  1030    3
62:  2030   42
63:  1031    3
64:  2031   42
65:  1032    3
66:  2032   42
67:  1033    3
68:  2033   42
69:  1034    3
70:  2034   42
71:  1035    3
72:  2035   42
Found 0 values in range
Counting number of voxels in first frame
Found 0 voxels in final mask
Count: 0 0.000000 16777216 0.000000
mri_binarize done

Started at Thu Jan 9 11:25:44 CST 2020
Ended   at Thu Jan  9 11:25:53 CST 2020
Apas2aseg-Run-Time-Sec 9

apas2aseg Done
#--------------------------------------------
#@# ASeg Stats Thu Jan  9 11:25:53 CST 2020
/study2/emowrap/data/freesurfer/subjects/066

 mri_segstats --seg mri/aseg.mgz --sum stats/aseg.stats --pv mri/norm.mgz --empty --brainmask mri/brainmask.mgz --brain-vol-from-seg --excludeid 0 --excl-ctxgmwm --supratent --subcortgray --in mri/norm.mgz --in-intensity-name norm --in-intensity-units MR --etiv --surf-wm-vol --surf-ctx-vol --totalgray --euler --ctab /apps/x86_64_sci7/freesurfer-6.0.0/ASegStatsLUT.txt --subject 066


$Id: mri_segstats.c,v 1.121 2016/05/31 17:27:11 greve Exp $
cwd
cmdline mri_segstats --seg mri/aseg.mgz --sum stats/aseg.stats --pv mri/norm.mgz --empty --brainmask mri/brainmask.mgz --brain-vol-from-seg --excludeid 0 --excl-ctxgmwm --supratent --subcortgray --in mri/norm.mgz --in-intensity-name norm --in-intensity-units MR --etiv --surf-wm-vol --surf-ctx-vol --totalgray --euler --ctab /apps/x86_64_sci7/freesurfer-6.0.0/ASegStatsLUT.txt --subject 066
sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
UseRobust  0
atlas_icv (eTIV) = 1534407 mm^3    (det: 1.269614 )
Computing euler number
orig.nofix lheno = -228, rheno = -224
orig.nofix lhholes =  115, rhholes = 113
Loading mri/aseg.mgz
Getting Brain Volume Statistics
lhCtxGM: 235858.017 235818.000  diff=   40.0  pctdiff= 0.017
rhCtxGM: 241318.199 240524.000  diff=  794.2  pctdiff= 0.329
lhCtxWM: 204397.779 204247.000  diff=  150.8  pctdiff= 0.074
rhCtxWM: 222307.320 225001.000  diff=-2693.7  pctdiff=-1.212
SubCortGMVol  52283.000
SupraTentVol  982799.313 (982161.000) diff=638.313 pctdiff=0.065
SupraTentVolNotVent  958939.313 (958301.000) diff=638.313 pctdiff=0.067
BrainSegVol  1113314.000 (1110424.000) diff=2890.000 pctdiff=0.260
BrainSegVolNotVent  1085412.000 (1083648.313) diff=1763.687 pctdiff=0.162
BrainSegVolNotVent  1085412.000
CerebellumVol 127056.000
VentChorVol   23860.000
3rd4th5thCSF   4042.000
CSFVol  1153.000, OptChiasmVol    54.000
MaskVol 1582486.000
Loading mri/norm.mgz
Loading mri/norm.mgz
Voxel Volume is 1 mm^3
Generating list of segmentation ids
Found  50 segmentations
Computing statistics for each segmentation

Reporting on  45 segmentations
Using PrintSegStat
mri_segstats done
#-----------------------------------------
#@# WMParc Thu Jan  9 11:31:12 CST 2020
/study2/emowrap/data/freesurfer/subjects/066

 mri_aparc2aseg --s 066 --labelwm --hypo-as-wm --rip-unknown --volmask --o mri/wmparc.mgz --ctxseg aparc+aseg.mgz

SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
subject 066
outvol mri/wmparc.mgz
useribbon 0
baseoffset 0
labeling wm
labeling hypo-intensities as wm
dmaxctx 5.000000
RipUnknown 1
CtxSeg /study2/emowrap/data/freesurfer/subjects/066/mri/aparc+aseg.mgz

Reading lh white surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white

Reading lh pial surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.pial

Loading lh annotations from /study2/emowrap/data/freesurfer/subjects/066/label/lh.aparc.annot
reading colortable from annotation file...
colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)

Reading rh white surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white

Reading rh pial surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.pial

Loading rh annotations from /study2/emowrap/data/freesurfer/subjects/066/label/rh.aparc.annot
reading colortable from annotation file...
colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
Have color table for lh white annotation
Have color table for rh white annotation
Loading ribbon segmentation from /study2/emowrap/data/freesurfer/subjects/066/mri/ribbon.mgz
Loading filled from /study2/emowrap/data/freesurfer/subjects/066/mri/ribbon.mgz
Ripping vertices labeled as unkown
Ripped 7981 vertices from left hemi
Ripped 7690 vertices from right hemi

Building hash of lh white

Building hash of lh pial

Building hash of rh white

Building hash of rh pial

Loading aseg from /study2/emowrap/data/freesurfer/subjects/066/mri/aseg.mgz
Loading Ctx Seg File /study2/emowrap/data/freesurfer/subjects/066/mri/aparc+aseg.mgz
ASeg Vox2RAS: -----------
-1.00000   0.00000   0.00000   128.00000;
 0.00000   0.00000   1.00000  -128.00000;
 0.00000  -1.00000   0.00000   128.00000;
 0.00000   0.00000   0.00000   1.00000;
-------------------------

Labeling Slice
  0   1   2   3   4   5   6   7   8   9  10  11  12  13  14  15  16  17  18  19
 20  21  22  23  24  25  26  27  28  29  30  31  32  33  34  35  36  37  38  39
 40  41  42  43  44  45  46  47  48  49  50  51  52  53  54  55  56  57  58  59
 60  61  62  63  64  65  66  67  68  69  70  71  72  73  74  75  76  77  78  79
 80  81  82  83  84  85  86  87  88  89  90  91  92  93  94  95  96  97  98  99
100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119
120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139
140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159
160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179
180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199
200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219
220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239
240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 nctx = 902857
Used brute-force search on 7 voxels
Fixing Parahip LH WM
  Found 12 clusters
     0 k 1.000000
     1 k 1.000000
     2 k 1.000000
     3 k 1134.000000
     4 k 5.000000
     5 k 1.000000
     6 k 1.000000
     7 k 1.000000
     8 k 2.000000
     9 k 2.000000
     10 k 2.000000
     11 k 2.000000
Fixing Parahip RH WM
  Found 13 clusters
     0 k 3.000000
     1 k 2.000000
     2 k 1.000000
     3 k 1419.000000
     4 k 1.000000
     5 k 1.000000
     6 k 1.000000
     7 k 1.000000
     8 k 5.000000
     9 k 1.000000
     10 k 1.000000
     11 k 5.000000
     12 k 1.000000
Writing output aseg to mri/wmparc.mgz

 mri_segstats --seg mri/wmparc.mgz --sum stats/wmparc.stats --pv mri/norm.mgz --excludeid 0 --brainmask mri/brainmask.mgz --in mri/norm.mgz --in-intensity-name norm --in-intensity-units MR --subject 066 --surf-wm-vol --ctab /apps/x86_64_sci7/freesurfer-6.0.0/WMParcStatsLUT.txt --etiv


$Id: mri_segstats.c,v 1.121 2016/05/31 17:27:11 greve Exp $
cwd
cmdline mri_segstats --seg mri/wmparc.mgz --sum stats/wmparc.stats --pv mri/norm.mgz --excludeid 0 --brainmask mri/brainmask.mgz --in mri/norm.mgz --in-intensity-name norm --in-intensity-units MR --subject 066 --surf-wm-vol --ctab /apps/x86_64_sci7/freesurfer-6.0.0/WMParcStatsLUT.txt --etiv
sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
UseRobust  0
atlas_icv (eTIV) = 1534407 mm^3    (det: 1.269614 )
Loading mri/wmparc.mgz
Getting Brain Volume Statistics
lhCtxGM: 235858.017 235818.000  diff=   40.0  pctdiff= 0.017
rhCtxGM: 241318.199 240524.000  diff=  794.2  pctdiff= 0.329
lhCtxWM: 204397.779 204247.000  diff=  150.8  pctdiff= 0.074
rhCtxWM: 222307.320 225001.000  diff=-2693.7  pctdiff=-1.212
SubCortGMVol  52283.000
SupraTentVol  982799.313 (982161.000) diff=638.313 pctdiff=0.065
SupraTentVolNotVent  958939.313 (958301.000) diff=638.313 pctdiff=0.067
BrainSegVol  1113314.000 (1110424.000) diff=2890.000 pctdiff=0.260
BrainSegVolNotVent  1085412.000 (1083648.313) diff=1763.687 pctdiff=0.162
BrainSegVolNotVent  1085412.000
CerebellumVol 127056.000
VentChorVol   23860.000
3rd4th5thCSF   4042.000
CSFVol  1153.000, OptChiasmVol    54.000
MaskVol 1582486.000
Loading mri/norm.mgz
Loading mri/norm.mgz
Voxel Volume is 1 mm^3
Generating list of segmentation ids
Found 390 segmentations
Computing statistics for each segmentation

Reporting on  70 segmentations
Using PrintSegStat
mri_segstats done
/study2/emowrap/data/freesurfer/subjects/066/label
#--------------------------------------------
#@# BA_exvivo Labels lh Thu Jan  9 11:46:08 CST 2020

 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA1_exvivo.label --trgsubject 066 --trglabel ./lh.BA1_exvivo.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA1_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.BA1_exvivo.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 4129 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  4129 nlabel points
Performing mapping from target back to the source label 144925
Number of reverse mapping hits = 415
Checking for and removing duplicates
Writing label file ./lh.BA1_exvivo.label 4544
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA2_exvivo.label --trgsubject 066 --trglabel ./lh.BA2_exvivo.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA2_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.BA2_exvivo.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 7909 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  7909 nlabel points
Performing mapping from target back to the source label 144925
Number of reverse mapping hits = 484
Checking for and removing duplicates
Writing label file ./lh.BA2_exvivo.label 8393
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA3a_exvivo.label --trgsubject 066 --trglabel ./lh.BA3a_exvivo.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA3a_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.BA3a_exvivo.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 4077 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  4077 nlabel points
Performing mapping from target back to the source label 144925
Number of reverse mapping hits = 110
Checking for and removing duplicates
Writing label file ./lh.BA3a_exvivo.label 4187
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA3b_exvivo.label --trgsubject 066 --trglabel ./lh.BA3b_exvivo.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA3b_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.BA3b_exvivo.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 5983 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  5983 nlabel points
Performing mapping from target back to the source label 144925
Number of reverse mapping hits = 308
Checking for and removing duplicates
Writing label file ./lh.BA3b_exvivo.label 6291
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA4a_exvivo.label --trgsubject 066 --trglabel ./lh.BA4a_exvivo.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA4a_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.BA4a_exvivo.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 5784 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  5784 nlabel points
Performing mapping from target back to the source label 144925
Number of reverse mapping hits = 565
Checking for and removing duplicates
Writing label file ./lh.BA4a_exvivo.label 6349
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA4p_exvivo.label --trgsubject 066 --trglabel ./lh.BA4p_exvivo.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA4p_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.BA4p_exvivo.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 4070 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  4070 nlabel points
Performing mapping from target back to the source label 144925
Number of reverse mapping hits = 226
Checking for and removing duplicates
Writing label file ./lh.BA4p_exvivo.label 4296
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA6_exvivo.label --trgsubject 066 --trglabel ./lh.BA6_exvivo.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA6_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.BA6_exvivo.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 13589 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  13589 nlabel points
Performing mapping from target back to the source label 144925
Number of reverse mapping hits = 2593
Checking for and removing duplicates
Writing label file ./lh.BA6_exvivo.label 16182
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA44_exvivo.label --trgsubject 066 --trglabel ./lh.BA44_exvivo.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA44_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.BA44_exvivo.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 4181 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  4181 nlabel points
Performing mapping from target back to the source label 144925
Number of reverse mapping hits = 353
Checking for and removing duplicates
Writing label file ./lh.BA44_exvivo.label 4534
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA45_exvivo.label --trgsubject 066 --trglabel ./lh.BA45_exvivo.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA45_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.BA45_exvivo.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 3422 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  3422 nlabel points
Performing mapping from target back to the source label 144925
Number of reverse mapping hits = 225
Checking for and removing duplicates
Writing label file ./lh.BA45_exvivo.label 3647
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.V1_exvivo.label --trgsubject 066 --trglabel ./lh.V1_exvivo.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.V1_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.V1_exvivo.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 4641 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  4641 nlabel points
Performing mapping from target back to the source label 144925
Number of reverse mapping hits = 2145
Checking for and removing duplicates
Writing label file ./lh.V1_exvivo.label 6786
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.V2_exvivo.label --trgsubject 066 --trglabel ./lh.V2_exvivo.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.V2_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.V2_exvivo.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 8114 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  8114 nlabel points
Performing mapping from target back to the source label 144925
Number of reverse mapping hits = 4561
Checking for and removing duplicates
Writing label file ./lh.V2_exvivo.label 12675
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.MT_exvivo.label --trgsubject 066 --trglabel ./lh.MT_exvivo.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.MT_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.MT_exvivo.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 2018 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  2018 nlabel points
Performing mapping from target back to the source label 144925
Number of reverse mapping hits = 179
Checking for and removing duplicates
Writing label file ./lh.MT_exvivo.label 2197
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.entorhinal_exvivo.label --trgsubject 066 --trglabel ./lh.entorhinal_exvivo.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.entorhinal_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.entorhinal_exvivo.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 1290 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  1290 nlabel points
Performing mapping from target back to the source label 144925
Number of reverse mapping hits = 144
Checking for and removing duplicates
Writing label file ./lh.entorhinal_exvivo.label 1434
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.perirhinal_exvivo.label --trgsubject 066 --trglabel ./lh.perirhinal_exvivo.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.perirhinal_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.perirhinal_exvivo.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 1199 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  1199 nlabel points
Performing mapping from target back to the source label 144925
Number of reverse mapping hits = 93
Checking for and removing duplicates
Writing label file ./lh.perirhinal_exvivo.label 1292
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA1_exvivo.thresh.label --trgsubject 066 --trglabel ./lh.BA1_exvivo.thresh.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA1_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.BA1_exvivo.thresh.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 1014 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  1014 nlabel points
Performing mapping from target back to the source label 144925
Number of reverse mapping hits = 180
Checking for and removing duplicates
Writing label file ./lh.BA1_exvivo.thresh.label 1194
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA2_exvivo.thresh.label --trgsubject 066 --trglabel ./lh.BA2_exvivo.thresh.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA2_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.BA2_exvivo.thresh.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 2092 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  2092 nlabel points
Performing mapping from target back to the source label 144925
Number of reverse mapping hits = 106
Checking for and removing duplicates
Writing label file ./lh.BA2_exvivo.thresh.label 2198
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA3a_exvivo.thresh.label --trgsubject 066 --trglabel ./lh.BA3a_exvivo.thresh.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA3a_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.BA3a_exvivo.thresh.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 1504 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  1504 nlabel points
Performing mapping from target back to the source label 144925
Number of reverse mapping hits = 27
Checking for and removing duplicates
Writing label file ./lh.BA3a_exvivo.thresh.label 1531
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA3b_exvivo.thresh.label --trgsubject 066 --trglabel ./lh.BA3b_exvivo.thresh.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA3b_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.BA3b_exvivo.thresh.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 1996 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  1996 nlabel points
Performing mapping from target back to the source label 144925
Number of reverse mapping hits = 90
Checking for and removing duplicates
Writing label file ./lh.BA3b_exvivo.thresh.label 2086
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA4a_exvivo.thresh.label --trgsubject 066 --trglabel ./lh.BA4a_exvivo.thresh.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA4a_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.BA4a_exvivo.thresh.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 2319 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  2319 nlabel points
Performing mapping from target back to the source label 144925
Number of reverse mapping hits = 243
Checking for and removing duplicates
Writing label file ./lh.BA4a_exvivo.thresh.label 2562
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA4p_exvivo.thresh.label --trgsubject 066 --trglabel ./lh.BA4p_exvivo.thresh.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA4p_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.BA4p_exvivo.thresh.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 1549 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  1549 nlabel points
Performing mapping from target back to the source label 144925
Number of reverse mapping hits = 87
Checking for and removing duplicates
Writing label file ./lh.BA4p_exvivo.thresh.label 1636
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA6_exvivo.thresh.label --trgsubject 066 --trglabel ./lh.BA6_exvivo.thresh.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA6_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.BA6_exvivo.thresh.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 7035 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  7035 nlabel points
Performing mapping from target back to the source label 144925
Number of reverse mapping hits = 856
Checking for and removing duplicates
Writing label file ./lh.BA6_exvivo.thresh.label 7891
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA44_exvivo.thresh.label --trgsubject 066 --trglabel ./lh.BA44_exvivo.thresh.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA44_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.BA44_exvivo.thresh.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 1912 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  1912 nlabel points
Performing mapping from target back to the source label 144925
Number of reverse mapping hits = 206
Checking for and removing duplicates
Writing label file ./lh.BA44_exvivo.thresh.label 2118
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA45_exvivo.thresh.label --trgsubject 066 --trglabel ./lh.BA45_exvivo.thresh.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA45_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.BA45_exvivo.thresh.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 1151 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  1151 nlabel points
Performing mapping from target back to the source label 144925
Number of reverse mapping hits = 85
Checking for and removing duplicates
Writing label file ./lh.BA45_exvivo.thresh.label 1236
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.V1_exvivo.thresh.label --trgsubject 066 --trglabel ./lh.V1_exvivo.thresh.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.V1_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.V1_exvivo.thresh.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 3405 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  3405 nlabel points
Performing mapping from target back to the source label 144925
Number of reverse mapping hits = 1558
Checking for and removing duplicates
Writing label file ./lh.V1_exvivo.thresh.label 4963
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.V2_exvivo.thresh.label --trgsubject 066 --trglabel ./lh.V2_exvivo.thresh.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.V2_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.V2_exvivo.thresh.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 3334 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  3334 nlabel points
Performing mapping from target back to the source label 144925
Number of reverse mapping hits = 1908
Checking for and removing duplicates
Writing label file ./lh.V2_exvivo.thresh.label 5242
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.MT_exvivo.thresh.label --trgsubject 066 --trglabel ./lh.MT_exvivo.thresh.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.MT_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.MT_exvivo.thresh.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 513 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  513 nlabel points
Performing mapping from target back to the source label 144925
Number of reverse mapping hits = 40
Checking for and removing duplicates
Writing label file ./lh.MT_exvivo.thresh.label 553
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.entorhinal_exvivo.thresh.label --trgsubject 066 --trglabel ./lh.entorhinal_exvivo.thresh.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.entorhinal_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.entorhinal_exvivo.thresh.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 470 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  470 nlabel points
Performing mapping from target back to the source label 144925
Number of reverse mapping hits = 68
Checking for and removing duplicates
Writing label file ./lh.entorhinal_exvivo.thresh.label 538
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.perirhinal_exvivo.thresh.label --trgsubject 066 --trglabel ./lh.perirhinal_exvivo.thresh.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.perirhinal_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.perirhinal_exvivo.thresh.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 450 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  450 nlabel points
Performing mapping from target back to the source label 144925
Number of reverse mapping hits = 34
Checking for and removing duplicates
Writing label file ./lh.perirhinal_exvivo.thresh.label 484
mri_label2label: Done


 mris_label2annot --s 066 --hemi lh --ctab /apps/x86_64_sci7/freesurfer-6.0.0/average/colortable_BA.txt --l lh.BA1_exvivo.label --l lh.BA2_exvivo.label --l lh.BA3a_exvivo.label --l lh.BA3b_exvivo.label --l lh.BA4a_exvivo.label --l lh.BA4p_exvivo.label --l lh.BA6_exvivo.label --l lh.BA44_exvivo.label --l lh.BA45_exvivo.label --l lh.V1_exvivo.label --l lh.V2_exvivo.label --l lh.MT_exvivo.label --l lh.entorhinal_exvivo.label --l lh.perirhinal_exvivo.label --a BA_exvivo --maxstatwinner --noverbose

Reading ctab /apps/x86_64_sci7/freesurfer-6.0.0/average/colortable_BA.txt
Number of ctab entries 15

$Id: mris_label2annot.c,v 1.20 2016/01/07 23:28:11 greve Exp $
cwd /study2/emowrap/data/freesurfer/subjects/066/label
cmdline mris_label2annot --s 066 --hemi lh --ctab /apps/x86_64_sci7/freesurfer-6.0.0/average/colortable_BA.txt --l lh.BA1_exvivo.label --l lh.BA2_exvivo.label --l lh.BA3a_exvivo.label --l lh.BA3b_exvivo.label --l lh.BA4a_exvivo.label --l lh.BA4p_exvivo.label --l lh.BA6_exvivo.label --l lh.BA44_exvivo.label --l lh.BA45_exvivo.label --l lh.V1_exvivo.label --l lh.V2_exvivo.label --l lh.MT_exvivo.label --l lh.entorhinal_exvivo.label --l lh.perirhinal_exvivo.label --a BA_exvivo --maxstatwinner --noverbose
sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan

subject 066
hemi    lh
SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
ColorTable /apps/x86_64_sci7/freesurfer-6.0.0/average/colortable_BA.txt
AnnotName  BA_exvivo
nlables 14
LabelThresh 0 0.000000
Loading /study2/emowrap/data/freesurfer/subjects/066/surf/lh.orig
 1 1530880 BA1_exvivo
 2 16749699 BA2_exvivo
 3 16711680 BA3a_exvivo
 4 3368703 BA3b_exvivo
 5 1376196 BA4a_exvivo
 6 13382655 BA4p_exvivo
 7 10036737 BA6_exvivo
 8 2490521 BA44_exvivo
 9 39283 BA45_exvivo
10 3993 V1_exvivo
11 8508928 V2_exvivo
12 10027163 MT_exvivo
13 16422433 perirhinal_exvivo
14 16392598 entorhinal_exvivo
Mapping unhit to unknown
Found 100799 unhit vertices
Writing annot to /study2/emowrap/data/freesurfer/subjects/066/label/lh.BA_exvivo.annot

 mris_label2annot --s 066 --hemi lh --ctab /apps/x86_64_sci7/freesurfer-6.0.0/average/colortable_BA.txt --l lh.BA1_exvivo.thresh.label --l lh.BA2_exvivo.thresh.label --l lh.BA3a_exvivo.thresh.label --l lh.BA3b_exvivo.thresh.label --l lh.BA4a_exvivo.thresh.label --l lh.BA4p_exvivo.thresh.label --l lh.BA6_exvivo.thresh.label --l lh.BA44_exvivo.thresh.label --l lh.BA45_exvivo.thresh.label --l lh.V1_exvivo.thresh.label --l lh.V2_exvivo.thresh.label --l lh.MT_exvivo.thresh.label --l lh.entorhinal_exvivo.thresh.label --l lh.perirhinal_exvivo.thresh.label --a BA_exvivo.thresh --maxstatwinner --noverbose

Reading ctab /apps/x86_64_sci7/freesurfer-6.0.0/average/colortable_BA.txt
Number of ctab entries 15

$Id: mris_label2annot.c,v 1.20 2016/01/07 23:28:11 greve Exp $
cwd /study2/emowrap/data/freesurfer/subjects/066/label
cmdline mris_label2annot --s 066 --hemi lh --ctab /apps/x86_64_sci7/freesurfer-6.0.0/average/colortable_BA.txt --l lh.BA1_exvivo.thresh.label --l lh.BA2_exvivo.thresh.label --l lh.BA3a_exvivo.thresh.label --l lh.BA3b_exvivo.thresh.label --l lh.BA4a_exvivo.thresh.label --l lh.BA4p_exvivo.thresh.label --l lh.BA6_exvivo.thresh.label --l lh.BA44_exvivo.thresh.label --l lh.BA45_exvivo.thresh.label --l lh.V1_exvivo.thresh.label --l lh.V2_exvivo.thresh.label --l lh.MT_exvivo.thresh.label --l lh.entorhinal_exvivo.thresh.label --l lh.perirhinal_exvivo.thresh.label --a BA_exvivo.thresh --maxstatwinner --noverbose
sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan

subject 066
hemi    lh
SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
ColorTable /apps/x86_64_sci7/freesurfer-6.0.0/average/colortable_BA.txt
AnnotName  BA_exvivo.thresh
nlables 14
LabelThresh 0 0.000000
Loading /study2/emowrap/data/freesurfer/subjects/066/surf/lh.orig
 1 1530880 BA1_exvivo
 2 16749699 BA2_exvivo
 3 16711680 BA3a_exvivo
 4 3368703 BA3b_exvivo
 5 1376196 BA4a_exvivo
 6 13382655 BA4p_exvivo
 7 10036737 BA6_exvivo
 8 2490521 BA44_exvivo
 9 39283 BA45_exvivo
10 3993 V1_exvivo
11 8508928 V2_exvivo
12 10027163 MT_exvivo
13 16422433 perirhinal_exvivo
14 16392598 entorhinal_exvivo
Mapping unhit to unknown
Found 118906 unhit vertices
Writing annot to /study2/emowrap/data/freesurfer/subjects/066/label/lh.BA_exvivo.thresh.annot

 mris_anatomical_stats -th3 -mgz -f ../stats/lh.BA_exvivo.stats -b -a ./lh.BA_exvivo.annot -c ./BA_exvivo.ctab 066 lh white

computing statistics for each annotation in ./lh.BA_exvivo.annot.
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/wm.mgz...
reading input surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white...
reading input pial surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.pial...
reading input white surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white...
INFO: using TH3 volume calc
INFO: assuming MGZ format for volumes.
Using TH3 vertex volume calc
Total face volume 242017
Total vertex volume 238685 (mask=0)
reading colortable from annotation file...
colortable with 15 entries read (originally /apps/x86_64_sci7/freesurfer-6.0.0/average/colortable_BA.txt)
Saving annotation colortable ./BA_exvivo.ctab

table columns are:
    number of vertices
    total surface area (mm^2)
    total gray matter volume (mm^3)
    average cortical thickness +- standard deviation (mm)
    integrated rectified mean curvature
    integrated rectified Gaussian curvature
    folding index
    intrinsic curvature index
    structure name

atlas_icv (eTIV) = 1534407 mm^3    (det: 1.269614 )
lhCtxGM: 235858.017 235818.000  diff=   40.0  pctdiff= 0.017
rhCtxGM: 241318.199 240524.000  diff=  794.2  pctdiff= 0.329
lhCtxWM: 204397.779 204247.000  diff=  150.8  pctdiff= 0.074
rhCtxWM: 222307.320 225001.000  diff=-2693.7  pctdiff=-1.212
SubCortGMVol  52283.000
SupraTentVol  982799.313 (982161.000) diff=638.313 pctdiff=0.065
SupraTentVolNotVent  958939.313 (958301.000) diff=638.313 pctdiff=0.067
BrainSegVol  1113314.000 (1110424.000) diff=2890.000 pctdiff=0.260
BrainSegVolNotVent  1085412.000 (1083648.313) diff=1763.687 pctdiff=0.162
BrainSegVolNotVent  1085412.000
CerebellumVol 127056.000
VentChorVol   23860.000
3rd4th5thCSF   4042.000
CSFVol  1153.000, OptChiasmVol    54.000
MaskVol 1582486.000
 1362    631   1834  2.188 0.560     0.119     0.049       23     3.0  BA1_exvivo
 3581   2264   4823  2.059 0.481     0.109     0.025       32     3.4  BA2_exvivo
  965    704   1107  1.960 0.446     0.129     0.028        7     1.1  BA3a_exvivo
 2163   1403   3119  2.012 0.579     0.097     0.024       22     2.2  BA3b_exvivo
 1806    879   2769  2.665 0.690     0.095     0.042       22     3.9  BA4a_exvivo
 1196    749   1898  2.588 0.455     0.075     0.017        4     0.9  BA4p_exvivo
11280   7235  21909  2.538 0.635     0.124     0.039      170    19.5  BA6_exvivo
 2326   1673   4555  2.428 0.454     0.119     0.031       35     2.9  BA44_exvivo
 2086   1527   4370  2.337 0.548     0.143     0.034       33     2.8  BA45_exvivo
 4365   2820   4925  1.751 0.534     0.131     0.035       52     6.8  V1_exvivo
10058   6220  13576  1.962 0.632     0.136     0.035      139    14.1  V2_exvivo
 1618   1111   2891  2.384 0.647     0.126     0.024       17     1.5  MT_exvivo
  643    417   1877  3.155 0.810     0.128     0.037       11     0.9  perirhinal_exvivo
  677    516   1567  2.829 0.735     0.146     0.031       11     0.7  entorhinal_exvivo

 mris_anatomical_stats -th3 -mgz -f ../stats/lh.BA_exvivo.thresh.stats -b -a ./lh.BA_exvivo.thresh.annot -c ./BA_exvivo.thresh.ctab 066 lh white

computing statistics for each annotation in ./lh.BA_exvivo.thresh.annot.
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/wm.mgz...
reading input surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white...
reading input pial surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.pial...
reading input white surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white...
INFO: using TH3 volume calc
INFO: assuming MGZ format for volumes.
Using TH3 vertex volume calc
Total face volume 242017
Total vertex volume 238685 (mask=0)
reading colortable from annotation file...
colortable with 15 entries read (originally /apps/x86_64_sci7/freesurfer-6.0.0/average/colortable_BA.txt)
Saving annotation colortable ./BA_exvivo.thresh.ctab

table columns are:
    number of vertices
    total surface area (mm^2)
    total gray matter volume (mm^3)
    average cortical thickness +- standard deviation (mm)
    integrated rectified mean curvature
    integrated rectified Gaussian curvature
    folding index
    intrinsic curvature index
    structure name

atlas_icv (eTIV) = 1534407 mm^3    (det: 1.269614 )
lhCtxGM: 235858.017 235818.000  diff=   40.0  pctdiff= 0.017
rhCtxGM: 241318.199 240524.000  diff=  794.2  pctdiff= 0.329
lhCtxWM: 204397.779 204247.000  diff=  150.8  pctdiff= 0.074
rhCtxWM: 222307.320 225001.000  diff=-2693.7  pctdiff=-1.212
SubCortGMVol  52283.000
SupraTentVol  982799.313 (982161.000) diff=638.313 pctdiff=0.065
SupraTentVolNotVent  958939.313 (958301.000) diff=638.313 pctdiff=0.067
BrainSegVol  1113314.000 (1110424.000) diff=2890.000 pctdiff=0.260
BrainSegVolNotVent  1085412.000 (1083648.313) diff=1763.687 pctdiff=0.162
BrainSegVolNotVent  1085412.000
CerebellumVol 127056.000
VentChorVol   23860.000
3rd4th5thCSF   4042.000
CSFVol  1153.000, OptChiasmVol    54.000
MaskVol 1582486.000
  901    359   1082  2.186 0.599     0.125     0.059       19     2.5  BA1_exvivo
 1488    886   1850  1.988 0.448     0.086     0.016        7     1.0  BA2_exvivo
  787    582    874  1.895 0.410     0.135     0.031        6     1.0  BA3a_exvivo
 1348    889   1593  1.795 0.475     0.074     0.014        5     0.8  BA3b_exvivo
 1673    851   2573  2.608 0.684     0.088     0.035       17     2.9  BA4a_exvivo
 1025    635   1532  2.546 0.459     0.080     0.018        4     0.8  BA4p_exvivo
 5780   3516  10870  2.602 0.603     0.115     0.035       73     8.6  BA6_exvivo
 1481   1085   3085  2.416 0.425     0.125     0.033       29     2.0  BA44_exvivo
  857    646   2130  2.493 0.589     0.153     0.037       16     1.4  BA45_exvivo
 4660   2970   5192  1.736 0.531     0.128     0.035       55     7.2  V1_exvivo
 4901   3141   6531  1.853 0.620     0.143     0.039       72     7.7  V2_exvivo
  416    285    883  2.557 0.725     0.153     0.027        7     0.4  MT_exvivo
  327    205    945  3.077 0.853     0.107     0.030        6     0.3  perirhinal_exvivo
  375    297    880  2.883 0.677     0.159     0.031        7     0.4  entorhinal_exvivo
#--------------------------------------------
#@# BA_exvivo Labels rh Thu Jan  9 11:53:51 CST 2020

 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA1_exvivo.label --trgsubject 066 --trglabel ./rh.BA1_exvivo.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA1_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.BA1_exvivo.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 3962 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  3962 nlabel points
Performing mapping from target back to the source label 152355
Number of reverse mapping hits = 418
Checking for and removing duplicates
Writing label file ./rh.BA1_exvivo.label 4380
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA2_exvivo.label --trgsubject 066 --trglabel ./rh.BA2_exvivo.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA2_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.BA2_exvivo.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 6687 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  6687 nlabel points
Performing mapping from target back to the source label 152355
Number of reverse mapping hits = 476
Checking for and removing duplicates
Writing label file ./rh.BA2_exvivo.label 7163
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA3a_exvivo.label --trgsubject 066 --trglabel ./rh.BA3a_exvivo.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA3a_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.BA3a_exvivo.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 3980 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  3980 nlabel points
Performing mapping from target back to the source label 152355
Number of reverse mapping hits = 178
Checking for and removing duplicates
Writing label file ./rh.BA3a_exvivo.label 4158
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA3b_exvivo.label --trgsubject 066 --trglabel ./rh.BA3b_exvivo.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA3b_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.BA3b_exvivo.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 4522 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  4522 nlabel points
Performing mapping from target back to the source label 152355
Number of reverse mapping hits = 278
Checking for and removing duplicates
Writing label file ./rh.BA3b_exvivo.label 4800
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA4a_exvivo.label --trgsubject 066 --trglabel ./rh.BA4a_exvivo.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA4a_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.BA4a_exvivo.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 5747 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  5747 nlabel points
Performing mapping from target back to the source label 152355
Number of reverse mapping hits = 897
Checking for and removing duplicates
Writing label file ./rh.BA4a_exvivo.label 6644
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA4p_exvivo.label --trgsubject 066 --trglabel ./rh.BA4p_exvivo.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA4p_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.BA4p_exvivo.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 4473 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  4473 nlabel points
Performing mapping from target back to the source label 152355
Number of reverse mapping hits = 496
Checking for and removing duplicates
Writing label file ./rh.BA4p_exvivo.label 4969
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA6_exvivo.label --trgsubject 066 --trglabel ./rh.BA6_exvivo.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA6_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.BA6_exvivo.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 12256 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  12256 nlabel points
Performing mapping from target back to the source label 152355
Number of reverse mapping hits = 1716
Checking for and removing duplicates
Writing label file ./rh.BA6_exvivo.label 13972
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA44_exvivo.label --trgsubject 066 --trglabel ./rh.BA44_exvivo.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA44_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.BA44_exvivo.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 6912 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  6912 nlabel points
Performing mapping from target back to the source label 152355
Number of reverse mapping hits = 1961
Checking for and removing duplicates
Writing label file ./rh.BA44_exvivo.label 8873
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA45_exvivo.label --trgsubject 066 --trglabel ./rh.BA45_exvivo.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA45_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.BA45_exvivo.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 5355 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  5355 nlabel points
Performing mapping from target back to the source label 152355
Number of reverse mapping hits = 2332
Checking for and removing duplicates
Writing label file ./rh.BA45_exvivo.label 7687
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.V1_exvivo.label --trgsubject 066 --trglabel ./rh.V1_exvivo.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.V1_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.V1_exvivo.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 4727 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  4727 nlabel points
Performing mapping from target back to the source label 152355
Number of reverse mapping hits = 2536
Checking for and removing duplicates
Writing label file ./rh.V1_exvivo.label 7263
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.V2_exvivo.label --trgsubject 066 --trglabel ./rh.V2_exvivo.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.V2_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.V2_exvivo.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 8016 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  8016 nlabel points
Performing mapping from target back to the source label 152355
Number of reverse mapping hits = 4626
Checking for and removing duplicates
Writing label file ./rh.V2_exvivo.label 12642
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.MT_exvivo.label --trgsubject 066 --trglabel ./rh.MT_exvivo.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.MT_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.MT_exvivo.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 1932 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  1932 nlabel points
Performing mapping from target back to the source label 152355
Number of reverse mapping hits = 543
Checking for and removing duplicates
Writing label file ./rh.MT_exvivo.label 2475
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.entorhinal_exvivo.label --trgsubject 066 --trglabel ./rh.entorhinal_exvivo.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.entorhinal_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.entorhinal_exvivo.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 1038 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  1038 nlabel points
Performing mapping from target back to the source label 152355
Number of reverse mapping hits = 113
Checking for and removing duplicates
Writing label file ./rh.entorhinal_exvivo.label 1151
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.perirhinal_exvivo.label --trgsubject 066 --trglabel ./rh.perirhinal_exvivo.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.perirhinal_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.perirhinal_exvivo.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 752 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  752 nlabel points
Performing mapping from target back to the source label 152355
Number of reverse mapping hits = 49
Checking for and removing duplicates
Writing label file ./rh.perirhinal_exvivo.label 801
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA1_exvivo.thresh.label --trgsubject 066 --trglabel ./rh.BA1_exvivo.thresh.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA1_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.BA1_exvivo.thresh.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 876 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  876 nlabel points
Performing mapping from target back to the source label 152355
Number of reverse mapping hits = 162
Checking for and removing duplicates
Writing label file ./rh.BA1_exvivo.thresh.label 1038
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA2_exvivo.thresh.label --trgsubject 066 --trglabel ./rh.BA2_exvivo.thresh.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA2_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.BA2_exvivo.thresh.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 2688 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  2688 nlabel points
Performing mapping from target back to the source label 152355
Number of reverse mapping hits = 108
Checking for and removing duplicates
Writing label file ./rh.BA2_exvivo.thresh.label 2796
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA3a_exvivo.thresh.label --trgsubject 066 --trglabel ./rh.BA3a_exvivo.thresh.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA3a_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.BA3a_exvivo.thresh.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 1698 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  1698 nlabel points
Performing mapping from target back to the source label 152355
Number of reverse mapping hits = 55
Checking for and removing duplicates
Writing label file ./rh.BA3a_exvivo.thresh.label 1753
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA3b_exvivo.thresh.label --trgsubject 066 --trglabel ./rh.BA3b_exvivo.thresh.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA3b_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.BA3b_exvivo.thresh.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 2183 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  2183 nlabel points
Performing mapping from target back to the source label 152355
Number of reverse mapping hits = 93
Checking for and removing duplicates
Writing label file ./rh.BA3b_exvivo.thresh.label 2276
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA4a_exvivo.thresh.label --trgsubject 066 --trglabel ./rh.BA4a_exvivo.thresh.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA4a_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.BA4a_exvivo.thresh.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 1388 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  1388 nlabel points
Performing mapping from target back to the source label 152355
Number of reverse mapping hits = 234
Checking for and removing duplicates
Writing label file ./rh.BA4a_exvivo.thresh.label 1622
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA4p_exvivo.thresh.label --trgsubject 066 --trglabel ./rh.BA4p_exvivo.thresh.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA4p_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.BA4p_exvivo.thresh.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 1489 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  1489 nlabel points
Performing mapping from target back to the source label 152355
Number of reverse mapping hits = 196
Checking for and removing duplicates
Writing label file ./rh.BA4p_exvivo.thresh.label 1685
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA6_exvivo.thresh.label --trgsubject 066 --trglabel ./rh.BA6_exvivo.thresh.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA6_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.BA6_exvivo.thresh.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 6959 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  6959 nlabel points
Performing mapping from target back to the source label 152355
Number of reverse mapping hits = 920
Checking for and removing duplicates
Writing label file ./rh.BA6_exvivo.thresh.label 7879
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA44_exvivo.thresh.label --trgsubject 066 --trglabel ./rh.BA44_exvivo.thresh.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA44_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.BA44_exvivo.thresh.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 1012 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  1012 nlabel points
Performing mapping from target back to the source label 152355
Number of reverse mapping hits = 230
Checking for and removing duplicates
Writing label file ./rh.BA44_exvivo.thresh.label 1242
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA45_exvivo.thresh.label --trgsubject 066 --trglabel ./rh.BA45_exvivo.thresh.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA45_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.BA45_exvivo.thresh.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 1178 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  1178 nlabel points
Performing mapping from target back to the source label 152355
Number of reverse mapping hits = 478
Checking for and removing duplicates
Writing label file ./rh.BA45_exvivo.thresh.label 1656
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.V1_exvivo.thresh.label --trgsubject 066 --trglabel ./rh.V1_exvivo.thresh.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.V1_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.V1_exvivo.thresh.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 3232 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  3232 nlabel points
Performing mapping from target back to the source label 152355
Number of reverse mapping hits = 1641
Checking for and removing duplicates
Writing label file ./rh.V1_exvivo.thresh.label 4873
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.V2_exvivo.thresh.label --trgsubject 066 --trglabel ./rh.V2_exvivo.thresh.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.V2_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.V2_exvivo.thresh.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 3437 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  3437 nlabel points
Performing mapping from target back to the source label 152355
Number of reverse mapping hits = 2192
Checking for and removing duplicates
Writing label file ./rh.V2_exvivo.thresh.label 5629
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.MT_exvivo.thresh.label --trgsubject 066 --trglabel ./rh.MT_exvivo.thresh.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.MT_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.MT_exvivo.thresh.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 268 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  268 nlabel points
Performing mapping from target back to the source label 152355
Number of reverse mapping hits = 41
Checking for and removing duplicates
Writing label file ./rh.MT_exvivo.thresh.label 309
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.entorhinal_exvivo.thresh.label --trgsubject 066 --trglabel ./rh.entorhinal_exvivo.thresh.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.entorhinal_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.entorhinal_exvivo.thresh.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 694 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  694 nlabel points
Performing mapping from target back to the source label 152355
Number of reverse mapping hits = 84
Checking for and removing duplicates
Writing label file ./rh.entorhinal_exvivo.thresh.label 778
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.perirhinal_exvivo.thresh.label --trgsubject 066 --trglabel ./rh.perirhinal_exvivo.thresh.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.perirhinal_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.perirhinal_exvivo.thresh.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 291 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  291 nlabel points
Performing mapping from target back to the source label 152355
Number of reverse mapping hits = 13
Checking for and removing duplicates
Writing label file ./rh.perirhinal_exvivo.thresh.label 304
mri_label2label: Done


 mris_label2annot --s 066 --hemi rh --ctab /apps/x86_64_sci7/freesurfer-6.0.0/average/colortable_BA.txt --l rh.BA1_exvivo.label --l rh.BA2_exvivo.label --l rh.BA3a_exvivo.label --l rh.BA3b_exvivo.label --l rh.BA4a_exvivo.label --l rh.BA4p_exvivo.label --l rh.BA6_exvivo.label --l rh.BA44_exvivo.label --l rh.BA45_exvivo.label --l rh.V1_exvivo.label --l rh.V2_exvivo.label --l rh.MT_exvivo.label --l rh.entorhinal_exvivo.label --l rh.perirhinal_exvivo.label --a BA_exvivo --maxstatwinner --noverbose

Reading ctab /apps/x86_64_sci7/freesurfer-6.0.0/average/colortable_BA.txt
Number of ctab entries 15

$Id: mris_label2annot.c,v 1.20 2016/01/07 23:28:11 greve Exp $
cwd /study2/emowrap/data/freesurfer/subjects/066/label
cmdline mris_label2annot --s 066 --hemi rh --ctab /apps/x86_64_sci7/freesurfer-6.0.0/average/colortable_BA.txt --l rh.BA1_exvivo.label --l rh.BA2_exvivo.label --l rh.BA3a_exvivo.label --l rh.BA3b_exvivo.label --l rh.BA4a_exvivo.label --l rh.BA4p_exvivo.label --l rh.BA6_exvivo.label --l rh.BA44_exvivo.label --l rh.BA45_exvivo.label --l rh.V1_exvivo.label --l rh.V2_exvivo.label --l rh.MT_exvivo.label --l rh.entorhinal_exvivo.label --l rh.perirhinal_exvivo.label --a BA_exvivo --maxstatwinner --noverbose
sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan

subject 066
hemi    rh
SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
ColorTable /apps/x86_64_sci7/freesurfer-6.0.0/average/colortable_BA.txt
AnnotName  BA_exvivo
nlables 14
LabelThresh 0 0.000000
Loading /study2/emowrap/data/freesurfer/subjects/066/surf/rh.orig
 1 1530880 BA1_exvivo
 2 16749699 BA2_exvivo
 3 16711680 BA3a_exvivo
 4 3368703 BA3b_exvivo
 5 1376196 BA4a_exvivo
 6 13382655 BA4p_exvivo
 7 10036737 BA6_exvivo
 8 2490521 BA44_exvivo
 9 39283 BA45_exvivo
10 3993 V1_exvivo
11 8508928 V2_exvivo
12 10027163 MT_exvivo
13 16422433 perirhinal_exvivo
14 16392598 entorhinal_exvivo
Mapping unhit to unknown
Found 104801 unhit vertices
Writing annot to /study2/emowrap/data/freesurfer/subjects/066/label/rh.BA_exvivo.annot

 mris_label2annot --s 066 --hemi rh --ctab /apps/x86_64_sci7/freesurfer-6.0.0/average/colortable_BA.txt --l rh.BA1_exvivo.thresh.label --l rh.BA2_exvivo.thresh.label --l rh.BA3a_exvivo.thresh.label --l rh.BA3b_exvivo.thresh.label --l rh.BA4a_exvivo.thresh.label --l rh.BA4p_exvivo.thresh.label --l rh.BA6_exvivo.thresh.label --l rh.BA44_exvivo.thresh.label --l rh.BA45_exvivo.thresh.label --l rh.V1_exvivo.thresh.label --l rh.V2_exvivo.thresh.label --l rh.MT_exvivo.thresh.label --l rh.entorhinal_exvivo.thresh.label --l rh.perirhinal_exvivo.thresh.label --a BA_exvivo.thresh --maxstatwinner --noverbose

Reading ctab /apps/x86_64_sci7/freesurfer-6.0.0/average/colortable_BA.txt
Number of ctab entries 15

$Id: mris_label2annot.c,v 1.20 2016/01/07 23:28:11 greve Exp $
cwd /study2/emowrap/data/freesurfer/subjects/066/label
cmdline mris_label2annot --s 066 --hemi rh --ctab /apps/x86_64_sci7/freesurfer-6.0.0/average/colortable_BA.txt --l rh.BA1_exvivo.thresh.label --l rh.BA2_exvivo.thresh.label --l rh.BA3a_exvivo.thresh.label --l rh.BA3b_exvivo.thresh.label --l rh.BA4a_exvivo.thresh.label --l rh.BA4p_exvivo.thresh.label --l rh.BA6_exvivo.thresh.label --l rh.BA44_exvivo.thresh.label --l rh.BA45_exvivo.thresh.label --l rh.V1_exvivo.thresh.label --l rh.V2_exvivo.thresh.label --l rh.MT_exvivo.thresh.label --l rh.entorhinal_exvivo.thresh.label --l rh.perirhinal_exvivo.thresh.label --a BA_exvivo.thresh --maxstatwinner --noverbose
sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan

subject 066
hemi    rh
SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
ColorTable /apps/x86_64_sci7/freesurfer-6.0.0/average/colortable_BA.txt
AnnotName  BA_exvivo.thresh
nlables 14
LabelThresh 0 0.000000
Loading /study2/emowrap/data/freesurfer/subjects/066/surf/rh.orig
 1 1530880 BA1_exvivo
 2 16749699 BA2_exvivo
 3 16711680 BA3a_exvivo
 4 3368703 BA3b_exvivo
 5 1376196 BA4a_exvivo
 6 13382655 BA4p_exvivo
 7 10036737 BA6_exvivo
 8 2490521 BA44_exvivo
 9 39283 BA45_exvivo
10 3993 V1_exvivo
11 8508928 V2_exvivo
12 10027163 MT_exvivo
13 16422433 perirhinal_exvivo
14 16392598 entorhinal_exvivo
Mapping unhit to unknown
Found 125894 unhit vertices
Writing annot to /study2/emowrap/data/freesurfer/subjects/066/label/rh.BA_exvivo.thresh.annot

 mris_anatomical_stats -th3 -mgz -f ../stats/rh.BA_exvivo.stats -b -a ./rh.BA_exvivo.annot -c ./BA_exvivo.ctab 066 rh white

computing statistics for each annotation in ./rh.BA_exvivo.annot.
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/wm.mgz...
reading input surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white...
reading input pial surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.pial...
reading input white surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white...
INFO: using TH3 volume calc
INFO: assuming MGZ format for volumes.
Using TH3 vertex volume calc
Total face volume 245262
Total vertex volume 241762 (mask=0)
reading colortable from annotation file...
colortable with 15 entries read (originally /apps/x86_64_sci7/freesurfer-6.0.0/average/colortable_BA.txt)
Saving annotation colortable ./BA_exvivo.ctab

table columns are:
    number of vertices
    total surface area (mm^2)
    total gray matter volume (mm^3)
    average cortical thickness +- standard deviation (mm)
    integrated rectified mean curvature
    integrated rectified Gaussian curvature
    folding index
    intrinsic curvature index
    structure name

atlas_icv (eTIV) = 1534407 mm^3    (det: 1.269614 )
lhCtxGM: 235858.017 235818.000  diff=   40.0  pctdiff= 0.017
rhCtxGM: 241318.199 240524.000  diff=  794.2  pctdiff= 0.329
lhCtxWM: 204397.779 204247.000  diff=  150.8  pctdiff= 0.074
rhCtxWM: 222307.320 225001.000  diff=-2693.7  pctdiff=-1.212
SubCortGMVol  52283.000
SupraTentVol  982799.313 (982161.000) diff=638.313 pctdiff=0.065
SupraTentVolNotVent  958939.313 (958301.000) diff=638.313 pctdiff=0.067
BrainSegVol  1113314.000 (1110424.000) diff=2890.000 pctdiff=0.260
BrainSegVolNotVent  1085412.000 (1083648.313) diff=1763.687 pctdiff=0.162
BrainSegVolNotVent  1085412.000
CerebellumVol 127056.000
VentChorVol   23860.000
3rd4th5thCSF   4042.000
CSFVol  1153.000, OptChiasmVol    54.000
MaskVol 1582486.000
 1123    556   1445  1.929 0.574     0.122     0.044       24     2.2  BA1_exvivo
 3212   1968   4007  2.005 0.460     0.097     0.027       30     4.0  BA2_exvivo
  982    744    998  1.750 0.341     0.132     0.027        8     1.1  BA3a_exvivo
 1902   1211   2129  1.621 0.508     0.089     0.022       14     1.7  BA3b_exvivo
 2001    988   3146  2.744 0.598     0.102     0.065       30     4.1  BA4a_exvivo
 1461    850   2164  2.654 0.485     0.079     0.021        7     1.2  BA4p_exvivo
 8620   5220  15368  2.542 0.632     0.115     0.040      135    15.4  BA6_exvivo
 4090   2653   6680  2.320 0.463     0.118     0.031       55     5.2  BA44_exvivo
 5880   3708   8750  2.071 0.548     0.129     0.044      104    10.4  BA45_exvivo
 4829   3180   5683  1.705 0.549     0.138     0.038       59     8.0  V1_exvivo
10233   6233  13126  1.918 0.586     0.137     0.038      155    15.9  V2_exvivo
 2234   1518   3945  2.417 0.487     0.119     0.025       25     2.2  MT_exvivo
  630    388   1867  3.151 0.709     0.122     0.039        8     1.1  perirhinal_exvivo
  357    262    848  2.821 0.605     0.116     0.018        3     0.3  entorhinal_exvivo

 mris_anatomical_stats -th3 -mgz -f ../stats/rh.BA_exvivo.thresh.stats -b -a ./rh.BA_exvivo.thresh.annot -c ./BA_exvivo.thresh.ctab 066 rh white

computing statistics for each annotation in ./rh.BA_exvivo.thresh.annot.
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/wm.mgz...
reading input surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white...
reading input pial surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.pial...
reading input white surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white...
INFO: using TH3 volume calc
INFO: assuming MGZ format for volumes.
Using TH3 vertex volume calc
Total face volume 245262
Total vertex volume 241762 (mask=0)
reading colortable from annotation file...
colortable with 15 entries read (originally /apps/x86_64_sci7/freesurfer-6.0.0/average/colortable_BA.txt)
Saving annotation colortable ./BA_exvivo.thresh.ctab

table columns are:
    number of vertices
    total surface area (mm^2)
    total gray matter volume (mm^3)
    average cortical thickness +- standard deviation (mm)
    integrated rectified mean curvature
    integrated rectified Gaussian curvature
    folding index
    intrinsic curvature index
    structure name

atlas_icv (eTIV) = 1534407 mm^3    (det: 1.269614 )
lhCtxGM: 235858.017 235818.000  diff=   40.0  pctdiff= 0.017
rhCtxGM: 241318.199 240524.000  diff=  794.2  pctdiff= 0.329
lhCtxWM: 204397.779 204247.000  diff=  150.8  pctdiff= 0.074
rhCtxWM: 222307.320 225001.000  diff=-2693.7  pctdiff=-1.212
SubCortGMVol  52283.000
SupraTentVol  982799.313 (982161.000) diff=638.313 pctdiff=0.065
SupraTentVolNotVent  958939.313 (958301.000) diff=638.313 pctdiff=0.067
BrainSegVol  1113314.000 (1110424.000) diff=2890.000 pctdiff=0.260
BrainSegVolNotVent  1085412.000 (1083648.313) diff=1763.687 pctdiff=0.162
BrainSegVolNotVent  1085412.000
CerebellumVol 127056.000
VentChorVol   23860.000
3rd4th5thCSF   4042.000
CSFVol  1153.000, OptChiasmVol    54.000
MaskVol 1582486.000
  829    382    906  1.763 0.550     0.108     0.033       14     1.3  BA1_exvivo
 1785   1070   2235  1.972 0.444     0.077     0.019       12     1.5  BA2_exvivo
  887    669    850  1.757 0.341     0.136     0.031        7     1.2  BA3a_exvivo
 1474    984   1476  1.500 0.381     0.077     0.015        6     1.0  BA3b_exvivo
 1221    569   1846  2.691 0.639     0.114     0.087       36     4.9  BA4a_exvivo
 1201    728   1860  2.723 0.486     0.079     0.019        5     0.9  BA4p_exvivo
 5640   3306   9828  2.515 0.651     0.115     0.037       79     8.9  BA6_exvivo
 1052    667   1938  2.381 0.505     0.123     0.042       17     1.9  BA44_exvivo
 1523    952   2672  2.304 0.468     0.145     0.054       36     3.0  BA45_exvivo
 4563   3045   5334  1.699 0.546     0.140     0.039       56     7.7  V1_exvivo
 5394   3330   6305  1.750 0.529     0.143     0.038       81     8.5  V2_exvivo
  254    179    566  2.473 0.399     0.122     0.025        3     0.2  MT_exvivo
  412    230   1116  3.102 0.749     0.119     0.045        6     0.9  perirhinal_exvivo
  226    177    502  2.922 0.475     0.138     0.021        2     0.2  entorhinal_exvivo
#--------------------------------------------
#@# Qdec Cache preproc lh thickness fsaverage Thu Jan  9 12:01:50 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/surf

 mris_preproc --s 066 --hemi lh --meas thickness --target fsaverage --out lh.thickness.fsaverage.mgh

nsubjects = 1
tmpdir is ./tmp.mris_preproc.14186
/study2/emowrap/data/freesurfer/subjects/066/surf
Log file is lh.thickness.fsaverage.mris_preproc.log
Thu Jan  9 12:01:51 CST 2020
setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
/apps/x86_64_sci7/freesurfer-6.0.0/bin/mris_preproc --s 066 --hemi lh --meas thickness --target fsaverage --out lh.thickness.fsaverage.mgh

Linux c137.keck.waisman.wisc.edu 3.10.0-1062.9.1.el7.x86_64 #1 SMP Thu Dec 5 14:44:59 CST 2019 x86_64 x86_64 x86_64 GNU/Linux
$Id: mris_preproc,v 1.76.2.1 2016/08/12 17:55:45 zkaufman Exp $
freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c
tmpdir is ./tmp.mris_preproc.14186
Src lh sphere.reg
Trg lh sphere.reg




---------------------------------------------------
#@# 1/1 066 Thu Jan  9 12:01:51 CST 2020 --------------
-----------------------
mri_surf2surf --srcsubject 066 --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.14186/066.1.mgh --sval /study2/emowrap/data/freesurfer/subjects/066/surf/lh.thickness --sfmt curv --noreshape --cortex
Source registration surface changed to sphere.reg
Target registration surface changed to sphere.reg

$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --srcsubject 066 --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.14186/066.1.mgh --sval /study2/emowrap/data/freesurfer/subjects/066/surf/lh.thickness --sfmt curv --noreshape --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = 066
srcval     = /study2/emowrap/data/freesurfer/subjects/066/surf/lh.thickness
srctype    = curv
trgsubject = fsaverage
trgval     = ./tmp.mris_preproc.14186/066.1.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 0
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Loading source data
Reading curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/lh.thickness
Reading source subject label mask lh.cortex.label
masking the input
Reading target surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Done
Using surf2surf_nnfr()
Mapping Source Volume onto Source Subject Surface
surf2surf_nnfr: building source hash (res=16).
Surf2Surf: Forward Loop (163842)

surf2surf_nnfr: building target hash (res=16).
Surf2Surf: Reverse Loop (144925)
Reverse Loop had 31385 hits
Surf2Surf: Dividing by number of hits (163842)
INFO: nSrcLost = 0
nTrg121 = 142459, nTrgMulti = 21383, MnTrgMultiHits = 2.46775
nSrc121 = 107211, nSrcLost =     0, nSrcMulti = 37714, MnSrcMultiHits = 2.33378
Reading target space mask label lh.cortex.label
masking the input
Saving target data
Saving to ./tmp.mris_preproc.14186/066.1.mgh



-----------------------
mri_concat ./tmp.mris_preproc.14186/066.1.mgh --o lh.thickness.fsaverage.mgh
ninputs = 1
Checking inputs
nframestot = 1
Allocing output
Done allocing
nframes = 1
Writing to lh.thickness.fsaverage.mgh



Cleaning up
-----------------------
rm -r ./tmp.mris_preproc.14186
Thu Jan  9 12:02:01 CST 2020
mris_preproc done
#--------------------------------------------
#@# Qdec Cache preproc lh area fsaverage Thu Jan  9 12:02:01 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/surf

 mris_preproc --s 066 --hemi lh --meas area --target fsaverage --out lh.area.fsaverage.mgh

nsubjects = 1
INFO: turning on jacobican correction
tmpdir is ./tmp.mris_preproc.14297
/study2/emowrap/data/freesurfer/subjects/066/surf
Log file is lh.area.fsaverage.mris_preproc.log
Thu Jan  9 12:02:02 CST 2020
setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
/apps/x86_64_sci7/freesurfer-6.0.0/bin/mris_preproc --s 066 --hemi lh --meas area --target fsaverage --out lh.area.fsaverage.mgh

Linux c137.keck.waisman.wisc.edu 3.10.0-1062.9.1.el7.x86_64 #1 SMP Thu Dec 5 14:44:59 CST 2019 x86_64 x86_64 x86_64 GNU/Linux
$Id: mris_preproc,v 1.76.2.1 2016/08/12 17:55:45 zkaufman Exp $
freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c
tmpdir is ./tmp.mris_preproc.14297
Src lh sphere.reg
Trg lh sphere.reg




---------------------------------------------------
#@# 1/1 066 Thu Jan  9 12:02:02 CST 2020 --------------
-----------------------
mri_surf2surf --srcsubject 066 --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.14297/066.1.mgh --sval /study2/emowrap/data/freesurfer/subjects/066/surf/lh.area --jac --sfmt curv --noreshape --cortex
Source registration surface changed to sphere.reg
Target registration surface changed to sphere.reg

$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --srcsubject 066 --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.14297/066.1.mgh --sval /study2/emowrap/data/freesurfer/subjects/066/surf/lh.area --jac --sfmt curv --noreshape --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = 066
srcval     = /study2/emowrap/data/freesurfer/subjects/066/surf/lh.area
srctype    = curv
trgsubject = fsaverage
trgval     = ./tmp.mris_preproc.14297/066.1.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 0
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Loading source data
Reading curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/lh.area
Reading source subject label mask lh.cortex.label
masking the input
Reading target surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Done
Using surf2surf_nnfr()
Mapping Source Volume onto Source Subject Surface with Jacobian Correction
surf2surf_nnfr_jac: building source hash (res=16).
Surf2SurfJac: 1st Forward Loop (163842)
Surf2SurfJac: 2nd Forward Loop (163842)
surf2surf_nnfr: building target hash (res=16).
Surf2SurfJac: Reverse Loop (144925)
Reverse Loop had 31385 hits
INFO: nSrcLost = 0
surf2surf_nnfr_jac() done
nTrg121 = 142459, nTrgMulti = 21383, MnTrgMultiHits = 2.46775
nSrc121 = 107211, nSrcLost =     0, nSrcMulti = 37714, MnSrcMultiHits = 2.33378
Reading target space mask label lh.cortex.label
masking the input
Saving target data
Saving to ./tmp.mris_preproc.14297/066.1.mgh



-----------------------
mri_concat ./tmp.mris_preproc.14297/066.1.mgh --o lh.area.fsaverage.mgh
ninputs = 1
Checking inputs
nframestot = 1
Allocing output
Done allocing
nframes = 1
Writing to lh.area.fsaverage.mgh



Cleaning up
-----------------------
rm -r ./tmp.mris_preproc.14297
Thu Jan  9 12:02:16 CST 2020
mris_preproc done
#--------------------------------------------
#@# Qdec Cache preproc lh area.pial fsaverage Thu Jan  9 12:02:16 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/surf

 mris_preproc --s 066 --hemi lh --meas area.pial --target fsaverage --out lh.area.pial.fsaverage.mgh

nsubjects = 1
INFO: turning on jacobican correction
tmpdir is ./tmp.mris_preproc.14419
/study2/emowrap/data/freesurfer/subjects/066/surf
Log file is lh.area.pial.fsaverage.mris_preproc.log
Thu Jan  9 12:02:17 CST 2020
setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
/apps/x86_64_sci7/freesurfer-6.0.0/bin/mris_preproc --s 066 --hemi lh --meas area.pial --target fsaverage --out lh.area.pial.fsaverage.mgh

Linux c137.keck.waisman.wisc.edu 3.10.0-1062.9.1.el7.x86_64 #1 SMP Thu Dec 5 14:44:59 CST 2019 x86_64 x86_64 x86_64 GNU/Linux
$Id: mris_preproc,v 1.76.2.1 2016/08/12 17:55:45 zkaufman Exp $
freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c
tmpdir is ./tmp.mris_preproc.14419
Src lh sphere.reg
Trg lh sphere.reg




---------------------------------------------------
#@# 1/1 066 Thu Jan  9 12:02:17 CST 2020 --------------
-----------------------
mri_surf2surf --srcsubject 066 --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.14419/066.1.mgh --sval /study2/emowrap/data/freesurfer/subjects/066/surf/lh.area.pial --jac --sfmt curv --noreshape --cortex
Source registration surface changed to sphere.reg
Target registration surface changed to sphere.reg

$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --srcsubject 066 --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.14419/066.1.mgh --sval /study2/emowrap/data/freesurfer/subjects/066/surf/lh.area.pial --jac --sfmt curv --noreshape --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = 066
srcval     = /study2/emowrap/data/freesurfer/subjects/066/surf/lh.area.pial
srctype    = curv
trgsubject = fsaverage
trgval     = ./tmp.mris_preproc.14419/066.1.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 0
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Loading source data
Reading curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/lh.area.pial
Reading source subject label mask lh.cortex.label
masking the input
Reading target surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Done
Using surf2surf_nnfr()
Mapping Source Volume onto Source Subject Surface with Jacobian Correction
surf2surf_nnfr_jac: building source hash (res=16).
Surf2SurfJac: 1st Forward Loop (163842)
Surf2SurfJac: 2nd Forward Loop (163842)
surf2surf_nnfr: building target hash (res=16).
Surf2SurfJac: Reverse Loop (144925)
Reverse Loop had 31385 hits
INFO: nSrcLost = 0
surf2surf_nnfr_jac() done
nTrg121 = 142459, nTrgMulti = 21383, MnTrgMultiHits = 2.46775
nSrc121 = 107211, nSrcLost =     0, nSrcMulti = 37714, MnSrcMultiHits = 2.33378
Reading target space mask label lh.cortex.label
masking the input
Saving target data
Saving to ./tmp.mris_preproc.14419/066.1.mgh



-----------------------
mri_concat ./tmp.mris_preproc.14419/066.1.mgh --o lh.area.pial.fsaverage.mgh
ninputs = 1
Checking inputs
nframestot = 1
Allocing output
Done allocing
nframes = 1
Writing to lh.area.pial.fsaverage.mgh



Cleaning up
-----------------------
rm -r ./tmp.mris_preproc.14419
Thu Jan  9 12:02:31 CST 2020
mris_preproc done
#--------------------------------------------
#@# Qdec Cache preproc lh volume fsaverage Thu Jan  9 12:02:31 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/surf

 mris_preproc --s 066 --hemi lh --meas volume --target fsaverage --out lh.volume.fsaverage.mgh

nsubjects = 1
INFO: turning on jacobican correction
tmpdir is ./tmp.mris_preproc.14530
/study2/emowrap/data/freesurfer/subjects/066/surf
Log file is lh.volume.fsaverage.mris_preproc.log
Thu Jan  9 12:02:31 CST 2020
setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
/apps/x86_64_sci7/freesurfer-6.0.0/bin/mris_preproc --s 066 --hemi lh --meas volume --target fsaverage --out lh.volume.fsaverage.mgh

Linux c137.keck.waisman.wisc.edu 3.10.0-1062.9.1.el7.x86_64 #1 SMP Thu Dec 5 14:44:59 CST 2019 x86_64 x86_64 x86_64 GNU/Linux
$Id: mris_preproc,v 1.76.2.1 2016/08/12 17:55:45 zkaufman Exp $
freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c
tmpdir is ./tmp.mris_preproc.14530
Src lh sphere.reg
Trg lh sphere.reg




---------------------------------------------------
#@# 1/1 066 Thu Jan  9 12:02:31 CST 2020 --------------
-----------------------
mri_surf2surf --srcsubject 066 --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.14530/066.1.mgh --sval /study2/emowrap/data/freesurfer/subjects/066/surf/lh.volume --jac --sfmt curv --noreshape --cortex
Source registration surface changed to sphere.reg
Target registration surface changed to sphere.reg

$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --srcsubject 066 --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.14530/066.1.mgh --sval /study2/emowrap/data/freesurfer/subjects/066/surf/lh.volume --jac --sfmt curv --noreshape --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = 066
srcval     = /study2/emowrap/data/freesurfer/subjects/066/surf/lh.volume
srctype    = curv
trgsubject = fsaverage
trgval     = ./tmp.mris_preproc.14530/066.1.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 0
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Loading source data
Reading curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/lh.volume
Reading source subject label mask lh.cortex.label
masking the input
Reading target surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Done
Using surf2surf_nnfr()
Mapping Source Volume onto Source Subject Surface with Jacobian Correction
surf2surf_nnfr_jac: building source hash (res=16).
Surf2SurfJac: 1st Forward Loop (163842)
Surf2SurfJac: 2nd Forward Loop (163842)
surf2surf_nnfr: building target hash (res=16).
Surf2SurfJac: Reverse Loop (144925)
Reverse Loop had 31385 hits
INFO: nSrcLost = 0
surf2surf_nnfr_jac() done
nTrg121 = 142459, nTrgMulti = 21383, MnTrgMultiHits = 2.46775
nSrc121 = 107211, nSrcLost =     0, nSrcMulti = 37714, MnSrcMultiHits = 2.33378
Reading target space mask label lh.cortex.label
masking the input
Saving target data
Saving to ./tmp.mris_preproc.14530/066.1.mgh



-----------------------
mri_concat ./tmp.mris_preproc.14530/066.1.mgh --o lh.volume.fsaverage.mgh
ninputs = 1
Checking inputs
nframestot = 1
Allocing output
Done allocing
nframes = 1
Writing to lh.volume.fsaverage.mgh



Cleaning up
-----------------------
rm -r ./tmp.mris_preproc.14530
Thu Jan  9 12:02:46 CST 2020
mris_preproc done
#--------------------------------------------
#@# Qdec Cache preproc lh curv fsaverage Thu Jan  9 12:02:46 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/surf

 mris_preproc --s 066 --hemi lh --meas curv --target fsaverage --out lh.curv.fsaverage.mgh

nsubjects = 1
tmpdir is ./tmp.mris_preproc.14662
/study2/emowrap/data/freesurfer/subjects/066/surf
Log file is lh.curv.fsaverage.mris_preproc.log
Thu Jan  9 12:02:46 CST 2020
setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
/apps/x86_64_sci7/freesurfer-6.0.0/bin/mris_preproc --s 066 --hemi lh --meas curv --target fsaverage --out lh.curv.fsaverage.mgh

Linux c137.keck.waisman.wisc.edu 3.10.0-1062.9.1.el7.x86_64 #1 SMP Thu Dec 5 14:44:59 CST 2019 x86_64 x86_64 x86_64 GNU/Linux
$Id: mris_preproc,v 1.76.2.1 2016/08/12 17:55:45 zkaufman Exp $
freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c
tmpdir is ./tmp.mris_preproc.14662
Src lh sphere.reg
Trg lh sphere.reg




---------------------------------------------------
#@# 1/1 066 Thu Jan  9 12:02:46 CST 2020 --------------
-----------------------
mri_surf2surf --srcsubject 066 --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.14662/066.1.mgh --sval /study2/emowrap/data/freesurfer/subjects/066/surf/lh.curv --sfmt curv --noreshape --cortex
Source registration surface changed to sphere.reg
Target registration surface changed to sphere.reg

$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --srcsubject 066 --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.14662/066.1.mgh --sval /study2/emowrap/data/freesurfer/subjects/066/surf/lh.curv --sfmt curv --noreshape --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = 066
srcval     = /study2/emowrap/data/freesurfer/subjects/066/surf/lh.curv
srctype    = curv
trgsubject = fsaverage
trgval     = ./tmp.mris_preproc.14662/066.1.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 0
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Loading source data
Reading curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/lh.curv
Reading source subject label mask lh.cortex.label
masking the input
Reading target surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Done
Using surf2surf_nnfr()
Mapping Source Volume onto Source Subject Surface
surf2surf_nnfr: building source hash (res=16).
Surf2Surf: Forward Loop (163842)

surf2surf_nnfr: building target hash (res=16).
Surf2Surf: Reverse Loop (144925)
Reverse Loop had 31385 hits
Surf2Surf: Dividing by number of hits (163842)
INFO: nSrcLost = 0
nTrg121 = 142459, nTrgMulti = 21383, MnTrgMultiHits = 2.46775
nSrc121 = 107211, nSrcLost =     0, nSrcMulti = 37714, MnSrcMultiHits = 2.33378
Reading target space mask label lh.cortex.label
masking the input
Saving target data
Saving to ./tmp.mris_preproc.14662/066.1.mgh



-----------------------
mri_concat ./tmp.mris_preproc.14662/066.1.mgh --o lh.curv.fsaverage.mgh
ninputs = 1
Checking inputs
nframestot = 1
Allocing output
Done allocing
nframes = 1
Writing to lh.curv.fsaverage.mgh



Cleaning up
-----------------------
rm -r ./tmp.mris_preproc.14662
Thu Jan  9 12:02:57 CST 2020
mris_preproc done
#--------------------------------------------
#@# Qdec Cache preproc lh sulc fsaverage Thu Jan  9 12:02:57 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/surf

 mris_preproc --s 066 --hemi lh --meas sulc --target fsaverage --out lh.sulc.fsaverage.mgh

nsubjects = 1
tmpdir is ./tmp.mris_preproc.14785
/study2/emowrap/data/freesurfer/subjects/066/surf
Log file is lh.sulc.fsaverage.mris_preproc.log
Thu Jan  9 12:02:57 CST 2020
setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
/apps/x86_64_sci7/freesurfer-6.0.0/bin/mris_preproc --s 066 --hemi lh --meas sulc --target fsaverage --out lh.sulc.fsaverage.mgh

Linux c137.keck.waisman.wisc.edu 3.10.0-1062.9.1.el7.x86_64 #1 SMP Thu Dec 5 14:44:59 CST 2019 x86_64 x86_64 x86_64 GNU/Linux
$Id: mris_preproc,v 1.76.2.1 2016/08/12 17:55:45 zkaufman Exp $
freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c
tmpdir is ./tmp.mris_preproc.14785
Src lh sphere.reg
Trg lh sphere.reg




---------------------------------------------------
#@# 1/1 066 Thu Jan  9 12:02:57 CST 2020 --------------
-----------------------
mri_surf2surf --srcsubject 066 --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.14785/066.1.mgh --sval /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sulc --sfmt curv --noreshape --cortex
Source registration surface changed to sphere.reg
Target registration surface changed to sphere.reg

$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --srcsubject 066 --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.14785/066.1.mgh --sval /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sulc --sfmt curv --noreshape --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = 066
srcval     = /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sulc
srctype    = curv
trgsubject = fsaverage
trgval     = ./tmp.mris_preproc.14785/066.1.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 0
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Loading source data
Reading curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sulc
Reading source subject label mask lh.cortex.label
masking the input
Reading target surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Done
Using surf2surf_nnfr()
Mapping Source Volume onto Source Subject Surface
surf2surf_nnfr: building source hash (res=16).
Surf2Surf: Forward Loop (163842)

surf2surf_nnfr: building target hash (res=16).
Surf2Surf: Reverse Loop (144925)
Reverse Loop had 31385 hits
Surf2Surf: Dividing by number of hits (163842)
INFO: nSrcLost = 0
nTrg121 = 142459, nTrgMulti = 21383, MnTrgMultiHits = 2.46775
nSrc121 = 107211, nSrcLost =     0, nSrcMulti = 37714, MnSrcMultiHits = 2.33378
Reading target space mask label lh.cortex.label
masking the input
Saving target data
Saving to ./tmp.mris_preproc.14785/066.1.mgh



-----------------------
mri_concat ./tmp.mris_preproc.14785/066.1.mgh --o lh.sulc.fsaverage.mgh
ninputs = 1
Checking inputs
nframestot = 1
Allocing output
Done allocing
nframes = 1
Writing to lh.sulc.fsaverage.mgh



Cleaning up
-----------------------
rm -r ./tmp.mris_preproc.14785
Thu Jan  9 12:03:08 CST 2020
mris_preproc done
#--------------------------------------------
#@# Qdec Cache preproc lh white.K fsaverage Thu Jan  9 12:03:08 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/surf

 mris_preproc --s 066 --hemi lh --meas white.K --target fsaverage --out lh.white.K.fsaverage.mgh

nsubjects = 1
tmpdir is ./tmp.mris_preproc.14901
/study2/emowrap/data/freesurfer/subjects/066/surf
Log file is lh.white.K.fsaverage.mris_preproc.log
Thu Jan  9 12:03:08 CST 2020
setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
/apps/x86_64_sci7/freesurfer-6.0.0/bin/mris_preproc --s 066 --hemi lh --meas white.K --target fsaverage --out lh.white.K.fsaverage.mgh

Linux c137.keck.waisman.wisc.edu 3.10.0-1062.9.1.el7.x86_64 #1 SMP Thu Dec 5 14:44:59 CST 2019 x86_64 x86_64 x86_64 GNU/Linux
$Id: mris_preproc,v 1.76.2.1 2016/08/12 17:55:45 zkaufman Exp $
freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c
tmpdir is ./tmp.mris_preproc.14901
Src lh sphere.reg
Trg lh sphere.reg




---------------------------------------------------
#@# 1/1 066 Thu Jan  9 12:03:08 CST 2020 --------------
-----------------------
mri_surf2surf --srcsubject 066 --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.14901/066.1.mgh --sval /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white.K --sfmt curv --noreshape --cortex
Source registration surface changed to sphere.reg
Target registration surface changed to sphere.reg

$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --srcsubject 066 --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.14901/066.1.mgh --sval /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white.K --sfmt curv --noreshape --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = 066
srcval     = /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white.K
srctype    = curv
trgsubject = fsaverage
trgval     = ./tmp.mris_preproc.14901/066.1.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 0
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Loading source data
Reading curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white.K
Reading source subject label mask lh.cortex.label
masking the input
Reading target surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Done
Using surf2surf_nnfr()
Mapping Source Volume onto Source Subject Surface
surf2surf_nnfr: building source hash (res=16).
Surf2Surf: Forward Loop (163842)

surf2surf_nnfr: building target hash (res=16).
Surf2Surf: Reverse Loop (144925)
Reverse Loop had 31385 hits
Surf2Surf: Dividing by number of hits (163842)
INFO: nSrcLost = 0
nTrg121 = 142459, nTrgMulti = 21383, MnTrgMultiHits = 2.46775
nSrc121 = 107211, nSrcLost =     0, nSrcMulti = 37714, MnSrcMultiHits = 2.33378
Reading target space mask label lh.cortex.label
masking the input
Saving target data
Saving to ./tmp.mris_preproc.14901/066.1.mgh



-----------------------
mri_concat ./tmp.mris_preproc.14901/066.1.mgh --o lh.white.K.fsaverage.mgh
ninputs = 1
Checking inputs
nframestot = 1
Allocing output
Done allocing
nframes = 1
Writing to lh.white.K.fsaverage.mgh



Cleaning up
-----------------------
rm -r ./tmp.mris_preproc.14901
Thu Jan  9 12:03:18 CST 2020
mris_preproc done
#--------------------------------------------
#@# Qdec Cache preproc lh white.H fsaverage Thu Jan  9 12:03:18 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/surf

 mris_preproc --s 066 --hemi lh --meas white.H --target fsaverage --out lh.white.H.fsaverage.mgh

nsubjects = 1
tmpdir is ./tmp.mris_preproc.15021
/study2/emowrap/data/freesurfer/subjects/066/surf
Log file is lh.white.H.fsaverage.mris_preproc.log
Thu Jan  9 12:03:19 CST 2020
setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
/apps/x86_64_sci7/freesurfer-6.0.0/bin/mris_preproc --s 066 --hemi lh --meas white.H --target fsaverage --out lh.white.H.fsaverage.mgh

Linux c137.keck.waisman.wisc.edu 3.10.0-1062.9.1.el7.x86_64 #1 SMP Thu Dec 5 14:44:59 CST 2019 x86_64 x86_64 x86_64 GNU/Linux
$Id: mris_preproc,v 1.76.2.1 2016/08/12 17:55:45 zkaufman Exp $
freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c
tmpdir is ./tmp.mris_preproc.15021
Src lh sphere.reg
Trg lh sphere.reg




---------------------------------------------------
#@# 1/1 066 Thu Jan  9 12:03:19 CST 2020 --------------
-----------------------
mri_surf2surf --srcsubject 066 --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.15021/066.1.mgh --sval /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white.H --sfmt curv --noreshape --cortex
Source registration surface changed to sphere.reg
Target registration surface changed to sphere.reg

$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --srcsubject 066 --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.15021/066.1.mgh --sval /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white.H --sfmt curv --noreshape --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = 066
srcval     = /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white.H
srctype    = curv
trgsubject = fsaverage
trgval     = ./tmp.mris_preproc.15021/066.1.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 0
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Loading source data
Reading curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white.H
Reading source subject label mask lh.cortex.label
masking the input
Reading target surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Done
Using surf2surf_nnfr()
Mapping Source Volume onto Source Subject Surface
surf2surf_nnfr: building source hash (res=16).
Surf2Surf: Forward Loop (163842)

surf2surf_nnfr: building target hash (res=16).
Surf2Surf: Reverse Loop (144925)
Reverse Loop had 31385 hits
Surf2Surf: Dividing by number of hits (163842)
INFO: nSrcLost = 0
nTrg121 = 142459, nTrgMulti = 21383, MnTrgMultiHits = 2.46775
nSrc121 = 107211, nSrcLost =     0, nSrcMulti = 37714, MnSrcMultiHits = 2.33378
Reading target space mask label lh.cortex.label
masking the input
Saving target data
Saving to ./tmp.mris_preproc.15021/066.1.mgh



-----------------------
mri_concat ./tmp.mris_preproc.15021/066.1.mgh --o lh.white.H.fsaverage.mgh
ninputs = 1
Checking inputs
nframestot = 1
Allocing output
Done allocing
nframes = 1
Writing to lh.white.H.fsaverage.mgh



Cleaning up
-----------------------
rm -r ./tmp.mris_preproc.15021
Thu Jan  9 12:03:29 CST 2020
mris_preproc done
#--------------------------------------------
#@# Qdec Cache preproc lh jacobian_white fsaverage Thu Jan  9 12:03:29 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/surf

 mris_preproc --s 066 --hemi lh --meas jacobian_white --target fsaverage --out lh.jacobian_white.fsaverage.mgh

nsubjects = 1
tmpdir is ./tmp.mris_preproc.15133
/study2/emowrap/data/freesurfer/subjects/066/surf
Log file is lh.jacobian_white.fsaverage.mris_preproc.log
Thu Jan  9 12:03:29 CST 2020
setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
/apps/x86_64_sci7/freesurfer-6.0.0/bin/mris_preproc --s 066 --hemi lh --meas jacobian_white --target fsaverage --out lh.jacobian_white.fsaverage.mgh

Linux c137.keck.waisman.wisc.edu 3.10.0-1062.9.1.el7.x86_64 #1 SMP Thu Dec 5 14:44:59 CST 2019 x86_64 x86_64 x86_64 GNU/Linux
$Id: mris_preproc,v 1.76.2.1 2016/08/12 17:55:45 zkaufman Exp $
freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c
tmpdir is ./tmp.mris_preproc.15133
Src lh sphere.reg
Trg lh sphere.reg




---------------------------------------------------
#@# 1/1 066 Thu Jan  9 12:03:29 CST 2020 --------------
-----------------------
mri_surf2surf --srcsubject 066 --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.15133/066.1.mgh --sval /study2/emowrap/data/freesurfer/subjects/066/surf/lh.jacobian_white --sfmt curv --noreshape --cortex
Source registration surface changed to sphere.reg
Target registration surface changed to sphere.reg

$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --srcsubject 066 --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.15133/066.1.mgh --sval /study2/emowrap/data/freesurfer/subjects/066/surf/lh.jacobian_white --sfmt curv --noreshape --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = 066
srcval     = /study2/emowrap/data/freesurfer/subjects/066/surf/lh.jacobian_white
srctype    = curv
trgsubject = fsaverage
trgval     = ./tmp.mris_preproc.15133/066.1.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 0
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Loading source data
Reading curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/lh.jacobian_white
Reading source subject label mask lh.cortex.label
masking the input
Reading target surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Done
Using surf2surf_nnfr()
Mapping Source Volume onto Source Subject Surface
surf2surf_nnfr: building source hash (res=16).
Surf2Surf: Forward Loop (163842)

surf2surf_nnfr: building target hash (res=16).
Surf2Surf: Reverse Loop (144925)
Reverse Loop had 31385 hits
Surf2Surf: Dividing by number of hits (163842)
INFO: nSrcLost = 0
nTrg121 = 142459, nTrgMulti = 21383, MnTrgMultiHits = 2.46775
nSrc121 = 107211, nSrcLost =     0, nSrcMulti = 37714, MnSrcMultiHits = 2.33378
Reading target space mask label lh.cortex.label
masking the input
Saving target data
Saving to ./tmp.mris_preproc.15133/066.1.mgh



-----------------------
mri_concat ./tmp.mris_preproc.15133/066.1.mgh --o lh.jacobian_white.fsaverage.mgh
ninputs = 1
Checking inputs
nframestot = 1
Allocing output
Done allocing
nframes = 1
Writing to lh.jacobian_white.fsaverage.mgh



Cleaning up
-----------------------
rm -r ./tmp.mris_preproc.15133
Thu Jan  9 12:03:40 CST 2020
mris_preproc done
#--------------------------------------------
#@# Qdec Cache preproc lh w-g.pct.mgh fsaverage Thu Jan  9 12:03:40 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/surf

 mris_preproc --s 066 --hemi lh --meas w-g.pct.mgh --target fsaverage --out lh.w-g.pct.mgh.fsaverage.mgh

nsubjects = 1
tmpdir is ./tmp.mris_preproc.15245
/study2/emowrap/data/freesurfer/subjects/066/surf
Log file is lh.w-g.pct.mgh.fsaverage.mris_preproc.log
Thu Jan  9 12:03:40 CST 2020
setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
/apps/x86_64_sci7/freesurfer-6.0.0/bin/mris_preproc --s 066 --hemi lh --meas w-g.pct.mgh --target fsaverage --out lh.w-g.pct.mgh.fsaverage.mgh

Linux c137.keck.waisman.wisc.edu 3.10.0-1062.9.1.el7.x86_64 #1 SMP Thu Dec 5 14:44:59 CST 2019 x86_64 x86_64 x86_64 GNU/Linux
$Id: mris_preproc,v 1.76.2.1 2016/08/12 17:55:45 zkaufman Exp $
freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c
tmpdir is ./tmp.mris_preproc.15245
Src lh sphere.reg
Trg lh sphere.reg




---------------------------------------------------
#@# 1/1 066 Thu Jan  9 12:03:40 CST 2020 --------------
-----------------------
mri_surf2surf --srcsubject 066 --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.15245/066.1.mgh --sval /study2/emowrap/data/freesurfer/subjects/066/surf/lh.w-g.pct.mgh --sfmt curv --noreshape --cortex
Source registration surface changed to sphere.reg
Target registration surface changed to sphere.reg

$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --srcsubject 066 --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.15245/066.1.mgh --sval /study2/emowrap/data/freesurfer/subjects/066/surf/lh.w-g.pct.mgh --sfmt curv --noreshape --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = 066
srcval     = /study2/emowrap/data/freesurfer/subjects/066/surf/lh.w-g.pct.mgh
srctype    = curv
trgsubject = fsaverage
trgval     = ./tmp.mris_preproc.15245/066.1.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 0
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Loading source data
Reading curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/lh.w-g.pct.mgh
Reading source subject label mask lh.cortex.label
masking the input
Reading target surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Done
Using surf2surf_nnfr()
Mapping Source Volume onto Source Subject Surface
surf2surf_nnfr: building source hash (res=16).
Surf2Surf: Forward Loop (163842)

surf2surf_nnfr: building target hash (res=16).
Surf2Surf: Reverse Loop (144925)
Reverse Loop had 31385 hits
Surf2Surf: Dividing by number of hits (163842)
INFO: nSrcLost = 0
nTrg121 = 142459, nTrgMulti = 21383, MnTrgMultiHits = 2.46775
nSrc121 = 107211, nSrcLost =     0, nSrcMulti = 37714, MnSrcMultiHits = 2.33378
Reading target space mask label lh.cortex.label
masking the input
Saving target data
Saving to ./tmp.mris_preproc.15245/066.1.mgh



-----------------------
mri_concat ./tmp.mris_preproc.15245/066.1.mgh --o lh.w-g.pct.mgh.fsaverage.mgh
ninputs = 1
Checking inputs
nframestot = 1
Allocing output
Done allocing
nframes = 1
Writing to lh.w-g.pct.mgh.fsaverage.mgh



Cleaning up
-----------------------
rm -r ./tmp.mris_preproc.15245
Thu Jan  9 12:03:51 CST 2020
mris_preproc done
#--------------------------------------------
#@# Qdec Cache preproc rh thickness fsaverage Thu Jan  9 12:03:51 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/surf

 mris_preproc --s 066 --hemi rh --meas thickness --target fsaverage --out rh.thickness.fsaverage.mgh

nsubjects = 1
tmpdir is ./tmp.mris_preproc.15357
/study2/emowrap/data/freesurfer/subjects/066/surf
Log file is rh.thickness.fsaverage.mris_preproc.log
Thu Jan  9 12:03:51 CST 2020
setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
/apps/x86_64_sci7/freesurfer-6.0.0/bin/mris_preproc --s 066 --hemi rh --meas thickness --target fsaverage --out rh.thickness.fsaverage.mgh

Linux c137.keck.waisman.wisc.edu 3.10.0-1062.9.1.el7.x86_64 #1 SMP Thu Dec 5 14:44:59 CST 2019 x86_64 x86_64 x86_64 GNU/Linux
$Id: mris_preproc,v 1.76.2.1 2016/08/12 17:55:45 zkaufman Exp $
freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c
tmpdir is ./tmp.mris_preproc.15357
Src rh sphere.reg
Trg rh sphere.reg




---------------------------------------------------
#@# 1/1 066 Thu Jan  9 12:03:51 CST 2020 --------------
-----------------------
mri_surf2surf --srcsubject 066 --srchemi rh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi rh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.15357/066.1.mgh --sval /study2/emowrap/data/freesurfer/subjects/066/surf/rh.thickness --sfmt curv --noreshape --cortex
Source registration surface changed to sphere.reg
Target registration surface changed to sphere.reg

$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --srcsubject 066 --srchemi rh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi rh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.15357/066.1.mgh --sval /study2/emowrap/data/freesurfer/subjects/066/surf/rh.thickness --sfmt curv --noreshape --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = 066
srcval     = /study2/emowrap/data/freesurfer/subjects/066/surf/rh.thickness
srctype    = curv
trgsubject = fsaverage
trgval     = ./tmp.mris_preproc.15357/066.1.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 0
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Loading source data
Reading curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/rh.thickness
Reading source subject label mask rh.cortex.label
masking the input
Reading target surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Done
Using surf2surf_nnfr()
Mapping Source Volume onto Source Subject Surface
surf2surf_nnfr: building source hash (res=16).
Surf2Surf: Forward Loop (163842)

surf2surf_nnfr: building target hash (res=16).
Surf2Surf: Reverse Loop (152355)
Reverse Loop had 33023 hits
Surf2Surf: Dividing by number of hits (163842)
INFO: nSrcLost = 0
nTrg121 = 140309, nTrgMulti = 23533, MnTrgMultiHits = 2.40326
nSrc121 = 117322, nSrcLost =     0, nSrcMulti = 35033, MnSrcMultiHits = 2.27052
Reading target space mask label rh.cortex.label
masking the input
Saving target data
Saving to ./tmp.mris_preproc.15357/066.1.mgh



-----------------------
mri_concat ./tmp.mris_preproc.15357/066.1.mgh --o rh.thickness.fsaverage.mgh
ninputs = 1
Checking inputs
nframestot = 1
Allocing output
Done allocing
nframes = 1
Writing to rh.thickness.fsaverage.mgh



Cleaning up
-----------------------
rm -r ./tmp.mris_preproc.15357
Thu Jan  9 12:04:02 CST 2020
mris_preproc done
#--------------------------------------------
#@# Qdec Cache preproc rh area fsaverage Thu Jan  9 12:04:02 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/surf

 mris_preproc --s 066 --hemi rh --meas area --target fsaverage --out rh.area.fsaverage.mgh

nsubjects = 1
INFO: turning on jacobican correction
tmpdir is ./tmp.mris_preproc.15468
/study2/emowrap/data/freesurfer/subjects/066/surf
Log file is rh.area.fsaverage.mris_preproc.log
Thu Jan  9 12:04:02 CST 2020
setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
/apps/x86_64_sci7/freesurfer-6.0.0/bin/mris_preproc --s 066 --hemi rh --meas area --target fsaverage --out rh.area.fsaverage.mgh

Linux c137.keck.waisman.wisc.edu 3.10.0-1062.9.1.el7.x86_64 #1 SMP Thu Dec 5 14:44:59 CST 2019 x86_64 x86_64 x86_64 GNU/Linux
$Id: mris_preproc,v 1.76.2.1 2016/08/12 17:55:45 zkaufman Exp $
freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c
tmpdir is ./tmp.mris_preproc.15468
Src rh sphere.reg
Trg rh sphere.reg




---------------------------------------------------
#@# 1/1 066 Thu Jan  9 12:04:03 CST 2020 --------------
-----------------------
mri_surf2surf --srcsubject 066 --srchemi rh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi rh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.15468/066.1.mgh --sval /study2/emowrap/data/freesurfer/subjects/066/surf/rh.area --jac --sfmt curv --noreshape --cortex
Source registration surface changed to sphere.reg
Target registration surface changed to sphere.reg

$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --srcsubject 066 --srchemi rh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi rh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.15468/066.1.mgh --sval /study2/emowrap/data/freesurfer/subjects/066/surf/rh.area --jac --sfmt curv --noreshape --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = 066
srcval     = /study2/emowrap/data/freesurfer/subjects/066/surf/rh.area
srctype    = curv
trgsubject = fsaverage
trgval     = ./tmp.mris_preproc.15468/066.1.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 0
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Loading source data
Reading curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/rh.area
Reading source subject label mask rh.cortex.label
masking the input
Reading target surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Done
Using surf2surf_nnfr()
Mapping Source Volume onto Source Subject Surface with Jacobian Correction
surf2surf_nnfr_jac: building source hash (res=16).
Surf2SurfJac: 1st Forward Loop (163842)
Surf2SurfJac: 2nd Forward Loop (163842)
surf2surf_nnfr: building target hash (res=16).
Surf2SurfJac: Reverse Loop (152355)
Reverse Loop had 33023 hits
INFO: nSrcLost = 0
surf2surf_nnfr_jac() done
nTrg121 = 140309, nTrgMulti = 23533, MnTrgMultiHits = 2.40326
nSrc121 = 117322, nSrcLost =     0, nSrcMulti = 35033, MnSrcMultiHits = 2.27052
Reading target space mask label rh.cortex.label
masking the input
Saving target data
Saving to ./tmp.mris_preproc.15468/066.1.mgh



-----------------------
mri_concat ./tmp.mris_preproc.15468/066.1.mgh --o rh.area.fsaverage.mgh
ninputs = 1
Checking inputs
nframestot = 1
Allocing output
Done allocing
nframes = 1
Writing to rh.area.fsaverage.mgh



Cleaning up
-----------------------
rm -r ./tmp.mris_preproc.15468
Thu Jan  9 12:04:17 CST 2020
mris_preproc done
#--------------------------------------------
#@# Qdec Cache preproc rh area.pial fsaverage Thu Jan  9 12:04:17 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/surf

 mris_preproc --s 066 --hemi rh --meas area.pial --target fsaverage --out rh.area.pial.fsaverage.mgh

nsubjects = 1
INFO: turning on jacobican correction
tmpdir is ./tmp.mris_preproc.15591
/study2/emowrap/data/freesurfer/subjects/066/surf
Log file is rh.area.pial.fsaverage.mris_preproc.log
Thu Jan  9 12:04:17 CST 2020
setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
/apps/x86_64_sci7/freesurfer-6.0.0/bin/mris_preproc --s 066 --hemi rh --meas area.pial --target fsaverage --out rh.area.pial.fsaverage.mgh

Linux c137.keck.waisman.wisc.edu 3.10.0-1062.9.1.el7.x86_64 #1 SMP Thu Dec 5 14:44:59 CST 2019 x86_64 x86_64 x86_64 GNU/Linux
$Id: mris_preproc,v 1.76.2.1 2016/08/12 17:55:45 zkaufman Exp $
freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c
tmpdir is ./tmp.mris_preproc.15591
Src rh sphere.reg
Trg rh sphere.reg




---------------------------------------------------
#@# 1/1 066 Thu Jan  9 12:04:18 CST 2020 --------------
-----------------------
mri_surf2surf --srcsubject 066 --srchemi rh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi rh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.15591/066.1.mgh --sval /study2/emowrap/data/freesurfer/subjects/066/surf/rh.area.pial --jac --sfmt curv --noreshape --cortex
Source registration surface changed to sphere.reg
Target registration surface changed to sphere.reg

$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --srcsubject 066 --srchemi rh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi rh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.15591/066.1.mgh --sval /study2/emowrap/data/freesurfer/subjects/066/surf/rh.area.pial --jac --sfmt curv --noreshape --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = 066
srcval     = /study2/emowrap/data/freesurfer/subjects/066/surf/rh.area.pial
srctype    = curv
trgsubject = fsaverage
trgval     = ./tmp.mris_preproc.15591/066.1.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 0
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Loading source data
Reading curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/rh.area.pial
Reading source subject label mask rh.cortex.label
masking the input
Reading target surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Done
Using surf2surf_nnfr()
Mapping Source Volume onto Source Subject Surface with Jacobian Correction
surf2surf_nnfr_jac: building source hash (res=16).
Surf2SurfJac: 1st Forward Loop (163842)
Surf2SurfJac: 2nd Forward Loop (163842)
surf2surf_nnfr: building target hash (res=16).
Surf2SurfJac: Reverse Loop (152355)
Reverse Loop had 33023 hits
INFO: nSrcLost = 0
surf2surf_nnfr_jac() done
nTrg121 = 140309, nTrgMulti = 23533, MnTrgMultiHits = 2.40326
nSrc121 = 117322, nSrcLost =     0, nSrcMulti = 35033, MnSrcMultiHits = 2.27052
Reading target space mask label rh.cortex.label
masking the input
Saving target data
Saving to ./tmp.mris_preproc.15591/066.1.mgh



-----------------------
mri_concat ./tmp.mris_preproc.15591/066.1.mgh --o rh.area.pial.fsaverage.mgh
ninputs = 1
Checking inputs
nframestot = 1
Allocing output
Done allocing
nframes = 1
Writing to rh.area.pial.fsaverage.mgh



Cleaning up
-----------------------
rm -r ./tmp.mris_preproc.15591
Thu Jan  9 12:04:32 CST 2020
mris_preproc done
#--------------------------------------------
#@# Qdec Cache preproc rh volume fsaverage Thu Jan  9 12:04:32 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/surf

 mris_preproc --s 066 --hemi rh --meas volume --target fsaverage --out rh.volume.fsaverage.mgh

nsubjects = 1
INFO: turning on jacobican correction
tmpdir is ./tmp.mris_preproc.15702
/study2/emowrap/data/freesurfer/subjects/066/surf
Log file is rh.volume.fsaverage.mris_preproc.log
Thu Jan  9 12:04:32 CST 2020
setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
/apps/x86_64_sci7/freesurfer-6.0.0/bin/mris_preproc --s 066 --hemi rh --meas volume --target fsaverage --out rh.volume.fsaverage.mgh

Linux c137.keck.waisman.wisc.edu 3.10.0-1062.9.1.el7.x86_64 #1 SMP Thu Dec 5 14:44:59 CST 2019 x86_64 x86_64 x86_64 GNU/Linux
$Id: mris_preproc,v 1.76.2.1 2016/08/12 17:55:45 zkaufman Exp $
freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c
tmpdir is ./tmp.mris_preproc.15702
Src rh sphere.reg
Trg rh sphere.reg




---------------------------------------------------
#@# 1/1 066 Thu Jan  9 12:04:32 CST 2020 --------------
-----------------------
mri_surf2surf --srcsubject 066 --srchemi rh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi rh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.15702/066.1.mgh --sval /study2/emowrap/data/freesurfer/subjects/066/surf/rh.volume --jac --sfmt curv --noreshape --cortex
Source registration surface changed to sphere.reg
Target registration surface changed to sphere.reg

$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --srcsubject 066 --srchemi rh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi rh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.15702/066.1.mgh --sval /study2/emowrap/data/freesurfer/subjects/066/surf/rh.volume --jac --sfmt curv --noreshape --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = 066
srcval     = /study2/emowrap/data/freesurfer/subjects/066/surf/rh.volume
srctype    = curv
trgsubject = fsaverage
trgval     = ./tmp.mris_preproc.15702/066.1.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 0
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Loading source data
Reading curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/rh.volume
Reading source subject label mask rh.cortex.label
masking the input
Reading target surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Done
Using surf2surf_nnfr()
Mapping Source Volume onto Source Subject Surface with Jacobian Correction
surf2surf_nnfr_jac: building source hash (res=16).
Surf2SurfJac: 1st Forward Loop (163842)
Surf2SurfJac: 2nd Forward Loop (163842)
surf2surf_nnfr: building target hash (res=16).
Surf2SurfJac: Reverse Loop (152355)
Reverse Loop had 33023 hits
INFO: nSrcLost = 0
surf2surf_nnfr_jac() done
nTrg121 = 140309, nTrgMulti = 23533, MnTrgMultiHits = 2.40326
nSrc121 = 117322, nSrcLost =     0, nSrcMulti = 35033, MnSrcMultiHits = 2.27052
Reading target space mask label rh.cortex.label
masking the input
Saving target data
Saving to ./tmp.mris_preproc.15702/066.1.mgh



-----------------------
mri_concat ./tmp.mris_preproc.15702/066.1.mgh --o rh.volume.fsaverage.mgh
ninputs = 1
Checking inputs
nframestot = 1
Allocing output
Done allocing
nframes = 1
Writing to rh.volume.fsaverage.mgh



Cleaning up
-----------------------
rm -r ./tmp.mris_preproc.15702
Thu Jan  9 12:04:47 CST 2020
mris_preproc done
#--------------------------------------------
#@# Qdec Cache preproc rh curv fsaverage Thu Jan  9 12:04:47 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/surf

 mris_preproc --s 066 --hemi rh --meas curv --target fsaverage --out rh.curv.fsaverage.mgh

nsubjects = 1
tmpdir is ./tmp.mris_preproc.15816
/study2/emowrap/data/freesurfer/subjects/066/surf
Log file is rh.curv.fsaverage.mris_preproc.log
Thu Jan  9 12:04:47 CST 2020
setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
/apps/x86_64_sci7/freesurfer-6.0.0/bin/mris_preproc --s 066 --hemi rh --meas curv --target fsaverage --out rh.curv.fsaverage.mgh

Linux c137.keck.waisman.wisc.edu 3.10.0-1062.9.1.el7.x86_64 #1 SMP Thu Dec 5 14:44:59 CST 2019 x86_64 x86_64 x86_64 GNU/Linux
$Id: mris_preproc,v 1.76.2.1 2016/08/12 17:55:45 zkaufman Exp $
freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c
tmpdir is ./tmp.mris_preproc.15816
Src rh sphere.reg
Trg rh sphere.reg




---------------------------------------------------
#@# 1/1 066 Thu Jan  9 12:04:47 CST 2020 --------------
-----------------------
mri_surf2surf --srcsubject 066 --srchemi rh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi rh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.15816/066.1.mgh --sval /study2/emowrap/data/freesurfer/subjects/066/surf/rh.curv --sfmt curv --noreshape --cortex
Source registration surface changed to sphere.reg
Target registration surface changed to sphere.reg

$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --srcsubject 066 --srchemi rh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi rh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.15816/066.1.mgh --sval /study2/emowrap/data/freesurfer/subjects/066/surf/rh.curv --sfmt curv --noreshape --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = 066
srcval     = /study2/emowrap/data/freesurfer/subjects/066/surf/rh.curv
srctype    = curv
trgsubject = fsaverage
trgval     = ./tmp.mris_preproc.15816/066.1.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 0
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Loading source data
Reading curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/rh.curv
Reading source subject label mask rh.cortex.label
masking the input
Reading target surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Done
Using surf2surf_nnfr()
Mapping Source Volume onto Source Subject Surface
surf2surf_nnfr: building source hash (res=16).
Surf2Surf: Forward Loop (163842)

surf2surf_nnfr: building target hash (res=16).
Surf2Surf: Reverse Loop (152355)
Reverse Loop had 33023 hits
Surf2Surf: Dividing by number of hits (163842)
INFO: nSrcLost = 0
nTrg121 = 140309, nTrgMulti = 23533, MnTrgMultiHits = 2.40326
nSrc121 = 117322, nSrcLost =     0, nSrcMulti = 35033, MnSrcMultiHits = 2.27052
Reading target space mask label rh.cortex.label
masking the input
Saving target data
Saving to ./tmp.mris_preproc.15816/066.1.mgh



-----------------------
mri_concat ./tmp.mris_preproc.15816/066.1.mgh --o rh.curv.fsaverage.mgh
ninputs = 1
Checking inputs
nframestot = 1
Allocing output
Done allocing
nframes = 1
Writing to rh.curv.fsaverage.mgh



Cleaning up
-----------------------
rm -r ./tmp.mris_preproc.15816
Thu Jan  9 12:04:59 CST 2020
mris_preproc done
#--------------------------------------------
#@# Qdec Cache preproc rh sulc fsaverage Thu Jan  9 12:04:59 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/surf

 mris_preproc --s 066 --hemi rh --meas sulc --target fsaverage --out rh.sulc.fsaverage.mgh

nsubjects = 1
tmpdir is ./tmp.mris_preproc.15928
/study2/emowrap/data/freesurfer/subjects/066/surf
Log file is rh.sulc.fsaverage.mris_preproc.log
Thu Jan  9 12:04:59 CST 2020
setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
/apps/x86_64_sci7/freesurfer-6.0.0/bin/mris_preproc --s 066 --hemi rh --meas sulc --target fsaverage --out rh.sulc.fsaverage.mgh

Linux c137.keck.waisman.wisc.edu 3.10.0-1062.9.1.el7.x86_64 #1 SMP Thu Dec 5 14:44:59 CST 2019 x86_64 x86_64 x86_64 GNU/Linux
$Id: mris_preproc,v 1.76.2.1 2016/08/12 17:55:45 zkaufman Exp $
freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c
tmpdir is ./tmp.mris_preproc.15928
Src rh sphere.reg
Trg rh sphere.reg




---------------------------------------------------
#@# 1/1 066 Thu Jan  9 12:04:59 CST 2020 --------------
-----------------------
mri_surf2surf --srcsubject 066 --srchemi rh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi rh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.15928/066.1.mgh --sval /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sulc --sfmt curv --noreshape --cortex
Source registration surface changed to sphere.reg
Target registration surface changed to sphere.reg

$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --srcsubject 066 --srchemi rh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi rh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.15928/066.1.mgh --sval /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sulc --sfmt curv --noreshape --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = 066
srcval     = /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sulc
srctype    = curv
trgsubject = fsaverage
trgval     = ./tmp.mris_preproc.15928/066.1.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 0
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Loading source data
Reading curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sulc
Reading source subject label mask rh.cortex.label
masking the input
Reading target surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Done
Using surf2surf_nnfr()
Mapping Source Volume onto Source Subject Surface
surf2surf_nnfr: building source hash (res=16).
Surf2Surf: Forward Loop (163842)

surf2surf_nnfr: building target hash (res=16).
Surf2Surf: Reverse Loop (152355)
Reverse Loop had 33023 hits
Surf2Surf: Dividing by number of hits (163842)
INFO: nSrcLost = 0
nTrg121 = 140309, nTrgMulti = 23533, MnTrgMultiHits = 2.40326
nSrc121 = 117322, nSrcLost =     0, nSrcMulti = 35033, MnSrcMultiHits = 2.27052
Reading target space mask label rh.cortex.label
masking the input
Saving target data
Saving to ./tmp.mris_preproc.15928/066.1.mgh



-----------------------
mri_concat ./tmp.mris_preproc.15928/066.1.mgh --o rh.sulc.fsaverage.mgh
ninputs = 1
Checking inputs
nframestot = 1
Allocing output
Done allocing
nframes = 1
Writing to rh.sulc.fsaverage.mgh



Cleaning up
-----------------------
rm -r ./tmp.mris_preproc.15928
Thu Jan  9 12:05:10 CST 2020
mris_preproc done
#--------------------------------------------
#@# Qdec Cache preproc rh white.K fsaverage Thu Jan  9 12:05:10 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/surf

 mris_preproc --s 066 --hemi rh --meas white.K --target fsaverage --out rh.white.K.fsaverage.mgh

nsubjects = 1
tmpdir is ./tmp.mris_preproc.16062
/study2/emowrap/data/freesurfer/subjects/066/surf
Log file is rh.white.K.fsaverage.mris_preproc.log
Thu Jan  9 12:05:10 CST 2020
setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
/apps/x86_64_sci7/freesurfer-6.0.0/bin/mris_preproc --s 066 --hemi rh --meas white.K --target fsaverage --out rh.white.K.fsaverage.mgh

Linux c137.keck.waisman.wisc.edu 3.10.0-1062.9.1.el7.x86_64 #1 SMP Thu Dec 5 14:44:59 CST 2019 x86_64 x86_64 x86_64 GNU/Linux
$Id: mris_preproc,v 1.76.2.1 2016/08/12 17:55:45 zkaufman Exp $
freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c
tmpdir is ./tmp.mris_preproc.16062
Src rh sphere.reg
Trg rh sphere.reg




---------------------------------------------------
#@# 1/1 066 Thu Jan  9 12:05:10 CST 2020 --------------
-----------------------
mri_surf2surf --srcsubject 066 --srchemi rh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi rh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.16062/066.1.mgh --sval /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white.K --sfmt curv --noreshape --cortex
Source registration surface changed to sphere.reg
Target registration surface changed to sphere.reg

$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --srcsubject 066 --srchemi rh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi rh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.16062/066.1.mgh --sval /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white.K --sfmt curv --noreshape --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = 066
srcval     = /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white.K
srctype    = curv
trgsubject = fsaverage
trgval     = ./tmp.mris_preproc.16062/066.1.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 0
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Loading source data
Reading curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white.K
Reading source subject label mask rh.cortex.label
masking the input
Reading target surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Done
Using surf2surf_nnfr()
Mapping Source Volume onto Source Subject Surface
surf2surf_nnfr: building source hash (res=16).
Surf2Surf: Forward Loop (163842)

surf2surf_nnfr: building target hash (res=16).
Surf2Surf: Reverse Loop (152355)
Reverse Loop had 33023 hits
Surf2Surf: Dividing by number of hits (163842)
INFO: nSrcLost = 0
nTrg121 = 140309, nTrgMulti = 23533, MnTrgMultiHits = 2.40326
nSrc121 = 117322, nSrcLost =     0, nSrcMulti = 35033, MnSrcMultiHits = 2.27052
Reading target space mask label rh.cortex.label
masking the input
Saving target data
Saving to ./tmp.mris_preproc.16062/066.1.mgh



-----------------------
mri_concat ./tmp.mris_preproc.16062/066.1.mgh --o rh.white.K.fsaverage.mgh
ninputs = 1
Checking inputs
nframestot = 1
Allocing output
Done allocing
nframes = 1
Writing to rh.white.K.fsaverage.mgh



Cleaning up
-----------------------
rm -r ./tmp.mris_preproc.16062
Thu Jan  9 12:05:21 CST 2020
mris_preproc done
#--------------------------------------------
#@# Qdec Cache preproc rh white.H fsaverage Thu Jan  9 12:05:21 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/surf

 mris_preproc --s 066 --hemi rh --meas white.H --target fsaverage --out rh.white.H.fsaverage.mgh

nsubjects = 1
tmpdir is ./tmp.mris_preproc.16181
/study2/emowrap/data/freesurfer/subjects/066/surf
Log file is rh.white.H.fsaverage.mris_preproc.log
Thu Jan  9 12:05:21 CST 2020
setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
/apps/x86_64_sci7/freesurfer-6.0.0/bin/mris_preproc --s 066 --hemi rh --meas white.H --target fsaverage --out rh.white.H.fsaverage.mgh

Linux c137.keck.waisman.wisc.edu 3.10.0-1062.9.1.el7.x86_64 #1 SMP Thu Dec 5 14:44:59 CST 2019 x86_64 x86_64 x86_64 GNU/Linux
$Id: mris_preproc,v 1.76.2.1 2016/08/12 17:55:45 zkaufman Exp $
freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c
tmpdir is ./tmp.mris_preproc.16181
Src rh sphere.reg
Trg rh sphere.reg




---------------------------------------------------
#@# 1/1 066 Thu Jan  9 12:05:22 CST 2020 --------------
-----------------------
mri_surf2surf --srcsubject 066 --srchemi rh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi rh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.16181/066.1.mgh --sval /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white.H --sfmt curv --noreshape --cortex
Source registration surface changed to sphere.reg
Target registration surface changed to sphere.reg

$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --srcsubject 066 --srchemi rh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi rh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.16181/066.1.mgh --sval /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white.H --sfmt curv --noreshape --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = 066
srcval     = /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white.H
srctype    = curv
trgsubject = fsaverage
trgval     = ./tmp.mris_preproc.16181/066.1.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 0
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Loading source data
Reading curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white.H
Reading source subject label mask rh.cortex.label
masking the input
Reading target surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Done
Using surf2surf_nnfr()
Mapping Source Volume onto Source Subject Surface
surf2surf_nnfr: building source hash (res=16).
Surf2Surf: Forward Loop (163842)

surf2surf_nnfr: building target hash (res=16).
Surf2Surf: Reverse Loop (152355)
Reverse Loop had 33023 hits
Surf2Surf: Dividing by number of hits (163842)
INFO: nSrcLost = 0
nTrg121 = 140309, nTrgMulti = 23533, MnTrgMultiHits = 2.40326
nSrc121 = 117322, nSrcLost =     0, nSrcMulti = 35033, MnSrcMultiHits = 2.27052
Reading target space mask label rh.cortex.label
masking the input
Saving target data
Saving to ./tmp.mris_preproc.16181/066.1.mgh



-----------------------
mri_concat ./tmp.mris_preproc.16181/066.1.mgh --o rh.white.H.fsaverage.mgh
ninputs = 1
Checking inputs
nframestot = 1
Allocing output
Done allocing
nframes = 1
Writing to rh.white.H.fsaverage.mgh



Cleaning up
-----------------------
rm -r ./tmp.mris_preproc.16181
Thu Jan  9 12:05:33 CST 2020
mris_preproc done
#--------------------------------------------
#@# Qdec Cache preproc rh jacobian_white fsaverage Thu Jan  9 12:05:33 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/surf

 mris_preproc --s 066 --hemi rh --meas jacobian_white --target fsaverage --out rh.jacobian_white.fsaverage.mgh

nsubjects = 1
tmpdir is ./tmp.mris_preproc.16293
/study2/emowrap/data/freesurfer/subjects/066/surf
Log file is rh.jacobian_white.fsaverage.mris_preproc.log
Thu Jan  9 12:05:33 CST 2020
setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
/apps/x86_64_sci7/freesurfer-6.0.0/bin/mris_preproc --s 066 --hemi rh --meas jacobian_white --target fsaverage --out rh.jacobian_white.fsaverage.mgh

Linux c137.keck.waisman.wisc.edu 3.10.0-1062.9.1.el7.x86_64 #1 SMP Thu Dec 5 14:44:59 CST 2019 x86_64 x86_64 x86_64 GNU/Linux
$Id: mris_preproc,v 1.76.2.1 2016/08/12 17:55:45 zkaufman Exp $
freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c
tmpdir is ./tmp.mris_preproc.16293
Src rh sphere.reg
Trg rh sphere.reg




---------------------------------------------------
#@# 1/1 066 Thu Jan  9 12:05:33 CST 2020 --------------
-----------------------
mri_surf2surf --srcsubject 066 --srchemi rh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi rh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.16293/066.1.mgh --sval /study2/emowrap/data/freesurfer/subjects/066/surf/rh.jacobian_white --sfmt curv --noreshape --cortex
Source registration surface changed to sphere.reg
Target registration surface changed to sphere.reg

$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --srcsubject 066 --srchemi rh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi rh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.16293/066.1.mgh --sval /study2/emowrap/data/freesurfer/subjects/066/surf/rh.jacobian_white --sfmt curv --noreshape --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = 066
srcval     = /study2/emowrap/data/freesurfer/subjects/066/surf/rh.jacobian_white
srctype    = curv
trgsubject = fsaverage
trgval     = ./tmp.mris_preproc.16293/066.1.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 0
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Loading source data
Reading curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/rh.jacobian_white
Reading source subject label mask rh.cortex.label
masking the input
Reading target surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Done
Using surf2surf_nnfr()
Mapping Source Volume onto Source Subject Surface
surf2surf_nnfr: building source hash (res=16).
Surf2Surf: Forward Loop (163842)

surf2surf_nnfr: building target hash (res=16).
Surf2Surf: Reverse Loop (152355)
Reverse Loop had 33023 hits
Surf2Surf: Dividing by number of hits (163842)
INFO: nSrcLost = 0
nTrg121 = 140309, nTrgMulti = 23533, MnTrgMultiHits = 2.40326
nSrc121 = 117322, nSrcLost =     0, nSrcMulti = 35033, MnSrcMultiHits = 2.27052
Reading target space mask label rh.cortex.label
masking the input
Saving target data
Saving to ./tmp.mris_preproc.16293/066.1.mgh



-----------------------
mri_concat ./tmp.mris_preproc.16293/066.1.mgh --o rh.jacobian_white.fsaverage.mgh
ninputs = 1
Checking inputs
nframestot = 1
Allocing output
Done allocing
nframes = 1
Writing to rh.jacobian_white.fsaverage.mgh



Cleaning up
-----------------------
rm -r ./tmp.mris_preproc.16293
Thu Jan  9 12:05:44 CST 2020
mris_preproc done
#--------------------------------------------
#@# Qdec Cache preproc rh w-g.pct.mgh fsaverage Thu Jan  9 12:05:44 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/surf

 mris_preproc --s 066 --hemi rh --meas w-g.pct.mgh --target fsaverage --out rh.w-g.pct.mgh.fsaverage.mgh

nsubjects = 1
tmpdir is ./tmp.mris_preproc.16407
/study2/emowrap/data/freesurfer/subjects/066/surf
Log file is rh.w-g.pct.mgh.fsaverage.mris_preproc.log
Thu Jan  9 12:05:44 CST 2020
setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
/apps/x86_64_sci7/freesurfer-6.0.0/bin/mris_preproc --s 066 --hemi rh --meas w-g.pct.mgh --target fsaverage --out rh.w-g.pct.mgh.fsaverage.mgh

Linux c137.keck.waisman.wisc.edu 3.10.0-1062.9.1.el7.x86_64 #1 SMP Thu Dec 5 14:44:59 CST 2019 x86_64 x86_64 x86_64 GNU/Linux
$Id: mris_preproc,v 1.76.2.1 2016/08/12 17:55:45 zkaufman Exp $
freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c
tmpdir is ./tmp.mris_preproc.16407
Src rh sphere.reg
Trg rh sphere.reg




---------------------------------------------------
#@# 1/1 066 Thu Jan  9 12:05:44 CST 2020 --------------
-----------------------
mri_surf2surf --srcsubject 066 --srchemi rh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi rh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.16407/066.1.mgh --sval /study2/emowrap/data/freesurfer/subjects/066/surf/rh.w-g.pct.mgh --sfmt curv --noreshape --cortex
Source registration surface changed to sphere.reg
Target registration surface changed to sphere.reg

$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --srcsubject 066 --srchemi rh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi rh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.16407/066.1.mgh --sval /study2/emowrap/data/freesurfer/subjects/066/surf/rh.w-g.pct.mgh --sfmt curv --noreshape --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = 066
srcval     = /study2/emowrap/data/freesurfer/subjects/066/surf/rh.w-g.pct.mgh
srctype    = curv
trgsubject = fsaverage
trgval     = ./tmp.mris_preproc.16407/066.1.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 0
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Loading source data
Reading curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/rh.w-g.pct.mgh
Reading source subject label mask rh.cortex.label
masking the input
Reading target surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Done
Using surf2surf_nnfr()
Mapping Source Volume onto Source Subject Surface
surf2surf_nnfr: building source hash (res=16).
Surf2Surf: Forward Loop (163842)

surf2surf_nnfr: building target hash (res=16).
Surf2Surf: Reverse Loop (152355)
Reverse Loop had 33023 hits
Surf2Surf: Dividing by number of hits (163842)
INFO: nSrcLost = 0
nTrg121 = 140309, nTrgMulti = 23533, MnTrgMultiHits = 2.40326
nSrc121 = 117322, nSrcLost =     0, nSrcMulti = 35033, MnSrcMultiHits = 2.27052
Reading target space mask label rh.cortex.label
masking the input
Saving target data
Saving to ./tmp.mris_preproc.16407/066.1.mgh



-----------------------
mri_concat ./tmp.mris_preproc.16407/066.1.mgh --o rh.w-g.pct.mgh.fsaverage.mgh
ninputs = 1
Checking inputs
nframestot = 1
Allocing output
Done allocing
nframes = 1
Writing to rh.w-g.pct.mgh.fsaverage.mgh



Cleaning up
-----------------------
rm -r ./tmp.mris_preproc.16407
Thu Jan  9 12:05:55 CST 2020
mris_preproc done
#--------------------------------------------
#@# Qdec Cache surf2surf lh thickness fwhm0 fsaverage Thu Jan  9 12:05:55 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 0 --sval lh.thickness.fsaverage.mgh --tval lh.thickness.fwhm0.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 0 --sval lh.thickness.fsaverage.mgh --tval lh.thickness.fwhm0.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.thickness.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.thickness.fwhm0.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 0
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Reading target space mask label lh.cortex.label
masking the input
Saving target data
Saving to lh.thickness.fwhm0.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh thickness fwhm5 fsaverage Thu Jan  9 12:05:59 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 5 --sval lh.thickness.fsaverage.mgh --tval lh.thickness.fwhm5.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 5 --sval lh.thickness.fsaverage.mgh --tval lh.thickness.fwhm5.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.thickness.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.thickness.fwhm5.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 5
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 5.000000,
 std = 2.123305, with 18 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 18
Saving target data
Saving to lh.thickness.fwhm5.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh thickness fwhm10 fsaverage Thu Jan  9 12:06:06 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 10 --sval lh.thickness.fsaverage.mgh --tval lh.thickness.fwhm10.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 10 --sval lh.thickness.fsaverage.mgh --tval lh.thickness.fwhm10.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.thickness.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.thickness.fwhm10.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 10
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 10.000000,
 std = 4.246609, with 74 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 74
Saving target data
Saving to lh.thickness.fwhm10.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh thickness fwhm15 fsaverage Thu Jan  9 12:06:14 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 15 --sval lh.thickness.fsaverage.mgh --tval lh.thickness.fwhm15.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 15 --sval lh.thickness.fsaverage.mgh --tval lh.thickness.fwhm15.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.thickness.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.thickness.fwhm15.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 15
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 15.000000,
 std = 6.369914, with 165 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 165
Saving target data
Saving to lh.thickness.fwhm15.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh thickness fwhm20 fsaverage Thu Jan  9 12:06:23 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 20 --sval lh.thickness.fsaverage.mgh --tval lh.thickness.fwhm20.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 20 --sval lh.thickness.fsaverage.mgh --tval lh.thickness.fwhm20.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.thickness.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.thickness.fwhm20.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 20
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 20.000000,
 std = 8.493218, with 294 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 294
Saving target data
Saving to lh.thickness.fwhm20.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh thickness fwhm25 fsaverage Thu Jan  9 12:06:31 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 25 --sval lh.thickness.fsaverage.mgh --tval lh.thickness.fwhm25.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 25 --sval lh.thickness.fsaverage.mgh --tval lh.thickness.fwhm25.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.thickness.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.thickness.fwhm25.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 25
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 25.000000,
 std = 10.616523, with 460 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 460
Saving target data
Saving to lh.thickness.fwhm25.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh area fwhm0 fsaverage Thu Jan  9 12:06:41 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 0 --sval lh.area.fsaverage.mgh --tval lh.area.fwhm0.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 0 --sval lh.area.fsaverage.mgh --tval lh.area.fwhm0.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.area.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.area.fwhm0.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 0
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Reading target space mask label lh.cortex.label
masking the input
Saving target data
Saving to lh.area.fwhm0.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh area fwhm5 fsaverage Thu Jan  9 12:06:45 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 5 --sval lh.area.fsaverage.mgh --tval lh.area.fwhm5.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 5 --sval lh.area.fsaverage.mgh --tval lh.area.fwhm5.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.area.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.area.fwhm5.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 5
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 5.000000,
 std = 2.123305, with 18 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 18
Saving target data
Saving to lh.area.fwhm5.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh area fwhm10 fsaverage Thu Jan  9 12:06:53 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 10 --sval lh.area.fsaverage.mgh --tval lh.area.fwhm10.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 10 --sval lh.area.fsaverage.mgh --tval lh.area.fwhm10.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.area.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.area.fwhm10.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 10
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 10.000000,
 std = 4.246609, with 74 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 74
Saving target data
Saving to lh.area.fwhm10.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh area fwhm15 fsaverage Thu Jan  9 12:07:00 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 15 --sval lh.area.fsaverage.mgh --tval lh.area.fwhm15.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 15 --sval lh.area.fsaverage.mgh --tval lh.area.fwhm15.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.area.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.area.fwhm15.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 15
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 15.000000,
 std = 6.369914, with 165 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 165
Saving target data
Saving to lh.area.fwhm15.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh area fwhm20 fsaverage Thu Jan  9 12:07:09 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 20 --sval lh.area.fsaverage.mgh --tval lh.area.fwhm20.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 20 --sval lh.area.fsaverage.mgh --tval lh.area.fwhm20.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.area.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.area.fwhm20.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 20
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 20.000000,
 std = 8.493218, with 294 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 294
Saving target data
Saving to lh.area.fwhm20.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh area fwhm25 fsaverage Thu Jan  9 12:07:18 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 25 --sval lh.area.fsaverage.mgh --tval lh.area.fwhm25.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 25 --sval lh.area.fsaverage.mgh --tval lh.area.fwhm25.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.area.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.area.fwhm25.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 25
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 25.000000,
 std = 10.616523, with 460 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 460
Saving target data
Saving to lh.area.fwhm25.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh area.pial fwhm0 fsaverage Thu Jan  9 12:07:27 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 0 --sval lh.area.pial.fsaverage.mgh --tval lh.area.pial.fwhm0.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 0 --sval lh.area.pial.fsaverage.mgh --tval lh.area.pial.fwhm0.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.area.pial.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.area.pial.fwhm0.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 0
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Reading target space mask label lh.cortex.label
masking the input
Saving target data
Saving to lh.area.pial.fwhm0.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh area.pial fwhm5 fsaverage Thu Jan  9 12:07:31 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 5 --sval lh.area.pial.fsaverage.mgh --tval lh.area.pial.fwhm5.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 5 --sval lh.area.pial.fsaverage.mgh --tval lh.area.pial.fwhm5.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.area.pial.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.area.pial.fwhm5.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 5
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 5.000000,
 std = 2.123305, with 18 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 18
Saving target data
Saving to lh.area.pial.fwhm5.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh area.pial fwhm10 fsaverage Thu Jan  9 12:07:39 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 10 --sval lh.area.pial.fsaverage.mgh --tval lh.area.pial.fwhm10.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 10 --sval lh.area.pial.fsaverage.mgh --tval lh.area.pial.fwhm10.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.area.pial.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.area.pial.fwhm10.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 10
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 10.000000,
 std = 4.246609, with 74 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 74
Saving target data
Saving to lh.area.pial.fwhm10.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh area.pial fwhm15 fsaverage Thu Jan  9 12:07:47 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 15 --sval lh.area.pial.fsaverage.mgh --tval lh.area.pial.fwhm15.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 15 --sval lh.area.pial.fsaverage.mgh --tval lh.area.pial.fwhm15.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.area.pial.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.area.pial.fwhm15.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 15
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 15.000000,
 std = 6.369914, with 165 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 165
Saving target data
Saving to lh.area.pial.fwhm15.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh area.pial fwhm20 fsaverage Thu Jan  9 12:07:55 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 20 --sval lh.area.pial.fsaverage.mgh --tval lh.area.pial.fwhm20.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 20 --sval lh.area.pial.fsaverage.mgh --tval lh.area.pial.fwhm20.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.area.pial.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.area.pial.fwhm20.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 20
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 20.000000,
 std = 8.493218, with 294 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 294
Saving target data
Saving to lh.area.pial.fwhm20.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh area.pial fwhm25 fsaverage Thu Jan  9 12:08:04 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 25 --sval lh.area.pial.fsaverage.mgh --tval lh.area.pial.fwhm25.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 25 --sval lh.area.pial.fsaverage.mgh --tval lh.area.pial.fwhm25.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.area.pial.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.area.pial.fwhm25.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 25
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 25.000000,
 std = 10.616523, with 460 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 460
Saving target data
Saving to lh.area.pial.fwhm25.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh volume fwhm0 fsaverage Thu Jan  9 12:08:14 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 0 --sval lh.volume.fsaverage.mgh --tval lh.volume.fwhm0.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 0 --sval lh.volume.fsaverage.mgh --tval lh.volume.fwhm0.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.volume.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.volume.fwhm0.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 0
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Reading target space mask label lh.cortex.label
masking the input
Saving target data
Saving to lh.volume.fwhm0.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh volume fwhm5 fsaverage Thu Jan  9 12:08:18 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 5 --sval lh.volume.fsaverage.mgh --tval lh.volume.fwhm5.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 5 --sval lh.volume.fsaverage.mgh --tval lh.volume.fwhm5.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.volume.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.volume.fwhm5.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 5
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 5.000000,
 std = 2.123305, with 18 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 18
Saving target data
Saving to lh.volume.fwhm5.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh volume fwhm10 fsaverage Thu Jan  9 12:08:25 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 10 --sval lh.volume.fsaverage.mgh --tval lh.volume.fwhm10.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 10 --sval lh.volume.fsaverage.mgh --tval lh.volume.fwhm10.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.volume.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.volume.fwhm10.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 10
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 10.000000,
 std = 4.246609, with 74 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 74
Saving target data
Saving to lh.volume.fwhm10.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh volume fwhm15 fsaverage Thu Jan  9 12:08:33 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 15 --sval lh.volume.fsaverage.mgh --tval lh.volume.fwhm15.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 15 --sval lh.volume.fsaverage.mgh --tval lh.volume.fwhm15.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.volume.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.volume.fwhm15.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 15
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 15.000000,
 std = 6.369914, with 165 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 165
Saving target data
Saving to lh.volume.fwhm15.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh volume fwhm20 fsaverage Thu Jan  9 12:08:41 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 20 --sval lh.volume.fsaverage.mgh --tval lh.volume.fwhm20.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 20 --sval lh.volume.fsaverage.mgh --tval lh.volume.fwhm20.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.volume.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.volume.fwhm20.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 20
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 20.000000,
 std = 8.493218, with 294 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 294
Saving target data
Saving to lh.volume.fwhm20.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh volume fwhm25 fsaverage Thu Jan  9 12:08:51 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 25 --sval lh.volume.fsaverage.mgh --tval lh.volume.fwhm25.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 25 --sval lh.volume.fsaverage.mgh --tval lh.volume.fwhm25.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.volume.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.volume.fwhm25.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 25
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 25.000000,
 std = 10.616523, with 460 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 460
Saving target data
Saving to lh.volume.fwhm25.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh curv fwhm0 fsaverage Thu Jan  9 12:09:00 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 0 --sval lh.curv.fsaverage.mgh --tval lh.curv.fwhm0.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 0 --sval lh.curv.fsaverage.mgh --tval lh.curv.fwhm0.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.curv.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.curv.fwhm0.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 0
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Reading target space mask label lh.cortex.label
masking the input
Saving target data
Saving to lh.curv.fwhm0.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh curv fwhm5 fsaverage Thu Jan  9 12:09:04 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 5 --sval lh.curv.fsaverage.mgh --tval lh.curv.fwhm5.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 5 --sval lh.curv.fsaverage.mgh --tval lh.curv.fwhm5.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.curv.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.curv.fwhm5.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 5
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 5.000000,
 std = 2.123305, with 18 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 18
Saving target data
Saving to lh.curv.fwhm5.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh curv fwhm10 fsaverage Thu Jan  9 12:09:12 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 10 --sval lh.curv.fsaverage.mgh --tval lh.curv.fwhm10.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 10 --sval lh.curv.fsaverage.mgh --tval lh.curv.fwhm10.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.curv.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.curv.fwhm10.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 10
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 10.000000,
 std = 4.246609, with 74 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 74
Saving target data
Saving to lh.curv.fwhm10.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh curv fwhm15 fsaverage Thu Jan  9 12:09:20 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 15 --sval lh.curv.fsaverage.mgh --tval lh.curv.fwhm15.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 15 --sval lh.curv.fsaverage.mgh --tval lh.curv.fwhm15.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.curv.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.curv.fwhm15.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 15
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 15.000000,
 std = 6.369914, with 165 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 165
Saving target data
Saving to lh.curv.fwhm15.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh curv fwhm20 fsaverage Thu Jan  9 12:09:28 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 20 --sval lh.curv.fsaverage.mgh --tval lh.curv.fwhm20.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 20 --sval lh.curv.fsaverage.mgh --tval lh.curv.fwhm20.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.curv.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.curv.fwhm20.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 20
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 20.000000,
 std = 8.493218, with 294 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 294
Saving target data
Saving to lh.curv.fwhm20.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh curv fwhm25 fsaverage Thu Jan  9 12:09:37 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 25 --sval lh.curv.fsaverage.mgh --tval lh.curv.fwhm25.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 25 --sval lh.curv.fsaverage.mgh --tval lh.curv.fwhm25.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.curv.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.curv.fwhm25.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 25
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 25.000000,
 std = 10.616523, with 460 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 460
Saving target data
Saving to lh.curv.fwhm25.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh sulc fwhm0 fsaverage Thu Jan  9 12:09:47 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 0 --sval lh.sulc.fsaverage.mgh --tval lh.sulc.fwhm0.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 0 --sval lh.sulc.fsaverage.mgh --tval lh.sulc.fwhm0.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.sulc.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.sulc.fwhm0.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 0
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Reading target space mask label lh.cortex.label
masking the input
Saving target data
Saving to lh.sulc.fwhm0.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh sulc fwhm5 fsaverage Thu Jan  9 12:09:51 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 5 --sval lh.sulc.fsaverage.mgh --tval lh.sulc.fwhm5.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 5 --sval lh.sulc.fsaverage.mgh --tval lh.sulc.fwhm5.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.sulc.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.sulc.fwhm5.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 5
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 5.000000,
 std = 2.123305, with 18 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 18
Saving target data
Saving to lh.sulc.fwhm5.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh sulc fwhm10 fsaverage Thu Jan  9 12:09:59 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 10 --sval lh.sulc.fsaverage.mgh --tval lh.sulc.fwhm10.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 10 --sval lh.sulc.fsaverage.mgh --tval lh.sulc.fwhm10.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.sulc.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.sulc.fwhm10.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 10
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 10.000000,
 std = 4.246609, with 74 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 74
Saving target data
Saving to lh.sulc.fwhm10.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh sulc fwhm15 fsaverage Thu Jan  9 12:10:08 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 15 --sval lh.sulc.fsaverage.mgh --tval lh.sulc.fwhm15.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 15 --sval lh.sulc.fsaverage.mgh --tval lh.sulc.fwhm15.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.sulc.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.sulc.fwhm15.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 15
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 15.000000,
 std = 6.369914, with 165 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 165
Saving target data
Saving to lh.sulc.fwhm15.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh sulc fwhm20 fsaverage Thu Jan  9 12:10:16 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 20 --sval lh.sulc.fsaverage.mgh --tval lh.sulc.fwhm20.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 20 --sval lh.sulc.fsaverage.mgh --tval lh.sulc.fwhm20.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.sulc.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.sulc.fwhm20.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 20
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 20.000000,
 std = 8.493218, with 294 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 294
Saving target data
Saving to lh.sulc.fwhm20.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh sulc fwhm25 fsaverage Thu Jan  9 12:10:25 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 25 --sval lh.sulc.fsaverage.mgh --tval lh.sulc.fwhm25.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 25 --sval lh.sulc.fsaverage.mgh --tval lh.sulc.fwhm25.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.sulc.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.sulc.fwhm25.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 25
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 25.000000,
 std = 10.616523, with 460 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 460
Saving target data
Saving to lh.sulc.fwhm25.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh white.K fwhm0 fsaverage Thu Jan  9 12:10:35 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 0 --sval lh.white.K.fsaverage.mgh --tval lh.white.K.fwhm0.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 0 --sval lh.white.K.fsaverage.mgh --tval lh.white.K.fwhm0.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.white.K.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.white.K.fwhm0.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 0
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Reading target space mask label lh.cortex.label
masking the input
Saving target data
Saving to lh.white.K.fwhm0.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh white.K fwhm5 fsaverage Thu Jan  9 12:10:38 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 5 --sval lh.white.K.fsaverage.mgh --tval lh.white.K.fwhm5.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 5 --sval lh.white.K.fsaverage.mgh --tval lh.white.K.fwhm5.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.white.K.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.white.K.fwhm5.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 5
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 5.000000,
 std = 2.123305, with 18 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 18
Saving target data
Saving to lh.white.K.fwhm5.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh white.K fwhm10 fsaverage Thu Jan  9 12:10:46 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 10 --sval lh.white.K.fsaverage.mgh --tval lh.white.K.fwhm10.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 10 --sval lh.white.K.fsaverage.mgh --tval lh.white.K.fwhm10.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.white.K.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.white.K.fwhm10.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 10
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 10.000000,
 std = 4.246609, with 74 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 74
Saving target data
Saving to lh.white.K.fwhm10.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh white.K fwhm15 fsaverage Thu Jan  9 12:10:54 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 15 --sval lh.white.K.fsaverage.mgh --tval lh.white.K.fwhm15.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 15 --sval lh.white.K.fsaverage.mgh --tval lh.white.K.fwhm15.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.white.K.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.white.K.fwhm15.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 15
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 15.000000,
 std = 6.369914, with 165 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 165
Saving target data
Saving to lh.white.K.fwhm15.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh white.K fwhm20 fsaverage Thu Jan  9 12:11:02 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 20 --sval lh.white.K.fsaverage.mgh --tval lh.white.K.fwhm20.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 20 --sval lh.white.K.fsaverage.mgh --tval lh.white.K.fwhm20.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.white.K.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.white.K.fwhm20.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 20
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 20.000000,
 std = 8.493218, with 294 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 294
Saving target data
Saving to lh.white.K.fwhm20.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh white.K fwhm25 fsaverage Thu Jan  9 12:11:11 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 25 --sval lh.white.K.fsaverage.mgh --tval lh.white.K.fwhm25.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 25 --sval lh.white.K.fsaverage.mgh --tval lh.white.K.fwhm25.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.white.K.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.white.K.fwhm25.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 25
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 25.000000,
 std = 10.616523, with 460 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 460
Saving target data
Saving to lh.white.K.fwhm25.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh white.H fwhm0 fsaverage Thu Jan  9 12:11:21 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 0 --sval lh.white.H.fsaverage.mgh --tval lh.white.H.fwhm0.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 0 --sval lh.white.H.fsaverage.mgh --tval lh.white.H.fwhm0.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.white.H.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.white.H.fwhm0.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 0
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Reading target space mask label lh.cortex.label
masking the input
Saving target data
Saving to lh.white.H.fwhm0.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh white.H fwhm5 fsaverage Thu Jan  9 12:11:25 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 5 --sval lh.white.H.fsaverage.mgh --tval lh.white.H.fwhm5.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 5 --sval lh.white.H.fsaverage.mgh --tval lh.white.H.fwhm5.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.white.H.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.white.H.fwhm5.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 5
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 5.000000,
 std = 2.123305, with 18 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 18
Saving target data
Saving to lh.white.H.fwhm5.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh white.H fwhm10 fsaverage Thu Jan  9 12:11:32 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 10 --sval lh.white.H.fsaverage.mgh --tval lh.white.H.fwhm10.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 10 --sval lh.white.H.fsaverage.mgh --tval lh.white.H.fwhm10.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.white.H.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.white.H.fwhm10.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 10
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 10.000000,
 std = 4.246609, with 74 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 74
Saving target data
Saving to lh.white.H.fwhm10.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh white.H fwhm15 fsaverage Thu Jan  9 12:11:40 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 15 --sval lh.white.H.fsaverage.mgh --tval lh.white.H.fwhm15.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 15 --sval lh.white.H.fsaverage.mgh --tval lh.white.H.fwhm15.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.white.H.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.white.H.fwhm15.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 15
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 15.000000,
 std = 6.369914, with 165 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 165
Saving target data
Saving to lh.white.H.fwhm15.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh white.H fwhm20 fsaverage Thu Jan  9 12:11:49 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 20 --sval lh.white.H.fsaverage.mgh --tval lh.white.H.fwhm20.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 20 --sval lh.white.H.fsaverage.mgh --tval lh.white.H.fwhm20.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.white.H.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.white.H.fwhm20.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 20
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 20.000000,
 std = 8.493218, with 294 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 294
Saving target data
Saving to lh.white.H.fwhm20.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh white.H fwhm25 fsaverage Thu Jan  9 12:11:58 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 25 --sval lh.white.H.fsaverage.mgh --tval lh.white.H.fwhm25.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 25 --sval lh.white.H.fsaverage.mgh --tval lh.white.H.fwhm25.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.white.H.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.white.H.fwhm25.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 25
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 25.000000,
 std = 10.616523, with 460 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 460
Saving target data
Saving to lh.white.H.fwhm25.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh jacobian_white fwhm0 fsaverage Thu Jan  9 12:12:07 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 0 --sval lh.jacobian_white.fsaverage.mgh --tval lh.jacobian_white.fwhm0.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 0 --sval lh.jacobian_white.fsaverage.mgh --tval lh.jacobian_white.fwhm0.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.jacobian_white.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.jacobian_white.fwhm0.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 0
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Reading target space mask label lh.cortex.label
masking the input
Saving target data
Saving to lh.jacobian_white.fwhm0.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh jacobian_white fwhm5 fsaverage Thu Jan  9 12:12:11 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 5 --sval lh.jacobian_white.fsaverage.mgh --tval lh.jacobian_white.fwhm5.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 5 --sval lh.jacobian_white.fsaverage.mgh --tval lh.jacobian_white.fwhm5.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.jacobian_white.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.jacobian_white.fwhm5.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 5
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 5.000000,
 std = 2.123305, with 18 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 18
Saving target data
Saving to lh.jacobian_white.fwhm5.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh jacobian_white fwhm10 fsaverage Thu Jan  9 12:12:19 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 10 --sval lh.jacobian_white.fsaverage.mgh --tval lh.jacobian_white.fwhm10.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 10 --sval lh.jacobian_white.fsaverage.mgh --tval lh.jacobian_white.fwhm10.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.jacobian_white.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.jacobian_white.fwhm10.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 10
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 10.000000,
 std = 4.246609, with 74 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 74
Saving target data
Saving to lh.jacobian_white.fwhm10.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh jacobian_white fwhm15 fsaverage Thu Jan  9 12:12:27 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 15 --sval lh.jacobian_white.fsaverage.mgh --tval lh.jacobian_white.fwhm15.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 15 --sval lh.jacobian_white.fsaverage.mgh --tval lh.jacobian_white.fwhm15.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.jacobian_white.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.jacobian_white.fwhm15.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 15
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 15.000000,
 std = 6.369914, with 165 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 165
Saving target data
Saving to lh.jacobian_white.fwhm15.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh jacobian_white fwhm20 fsaverage Thu Jan  9 12:12:35 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 20 --sval lh.jacobian_white.fsaverage.mgh --tval lh.jacobian_white.fwhm20.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 20 --sval lh.jacobian_white.fsaverage.mgh --tval lh.jacobian_white.fwhm20.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.jacobian_white.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.jacobian_white.fwhm20.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 20
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 20.000000,
 std = 8.493218, with 294 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 294
Saving target data
Saving to lh.jacobian_white.fwhm20.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh jacobian_white fwhm25 fsaverage Thu Jan  9 12:12:44 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 25 --sval lh.jacobian_white.fsaverage.mgh --tval lh.jacobian_white.fwhm25.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 25 --sval lh.jacobian_white.fsaverage.mgh --tval lh.jacobian_white.fwhm25.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.jacobian_white.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.jacobian_white.fwhm25.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 25
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 25.000000,
 std = 10.616523, with 460 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 460
Saving target data
Saving to lh.jacobian_white.fwhm25.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh w-g.pct.mgh fwhm0 fsaverage Thu Jan  9 12:12:54 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 0 --sval lh.w-g.pct.mgh.fsaverage.mgh --tval lh.w-g.pct.mgh.fwhm0.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 0 --sval lh.w-g.pct.mgh.fsaverage.mgh --tval lh.w-g.pct.mgh.fwhm0.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.w-g.pct.mgh.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.w-g.pct.mgh.fwhm0.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 0
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Reading target space mask label lh.cortex.label
masking the input
Saving target data
Saving to lh.w-g.pct.mgh.fwhm0.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh w-g.pct.mgh fwhm5 fsaverage Thu Jan  9 12:12:59 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 5 --sval lh.w-g.pct.mgh.fsaverage.mgh --tval lh.w-g.pct.mgh.fwhm5.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 5 --sval lh.w-g.pct.mgh.fsaverage.mgh --tval lh.w-g.pct.mgh.fwhm5.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.w-g.pct.mgh.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.w-g.pct.mgh.fwhm5.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 5
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 5.000000,
 std = 2.123305, with 18 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 18
Saving target data
Saving to lh.w-g.pct.mgh.fwhm5.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh w-g.pct.mgh fwhm10 fsaverage Thu Jan  9 12:13:06 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 10 --sval lh.w-g.pct.mgh.fsaverage.mgh --tval lh.w-g.pct.mgh.fwhm10.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 10 --sval lh.w-g.pct.mgh.fsaverage.mgh --tval lh.w-g.pct.mgh.fwhm10.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.w-g.pct.mgh.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.w-g.pct.mgh.fwhm10.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 10
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 10.000000,
 std = 4.246609, with 74 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 74
Saving target data
Saving to lh.w-g.pct.mgh.fwhm10.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh w-g.pct.mgh fwhm15 fsaverage Thu Jan  9 12:13:15 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 15 --sval lh.w-g.pct.mgh.fsaverage.mgh --tval lh.w-g.pct.mgh.fwhm15.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 15 --sval lh.w-g.pct.mgh.fsaverage.mgh --tval lh.w-g.pct.mgh.fwhm15.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.w-g.pct.mgh.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.w-g.pct.mgh.fwhm15.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 15
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 15.000000,
 std = 6.369914, with 165 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 165
Saving target data
Saving to lh.w-g.pct.mgh.fwhm15.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh w-g.pct.mgh fwhm20 fsaverage Thu Jan  9 12:13:23 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 20 --sval lh.w-g.pct.mgh.fsaverage.mgh --tval lh.w-g.pct.mgh.fwhm20.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 20 --sval lh.w-g.pct.mgh.fsaverage.mgh --tval lh.w-g.pct.mgh.fwhm20.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.w-g.pct.mgh.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.w-g.pct.mgh.fwhm20.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 20
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 20.000000,
 std = 8.493218, with 294 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 294
Saving target data
Saving to lh.w-g.pct.mgh.fwhm20.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf lh w-g.pct.mgh fwhm25 fsaverage Thu Jan  9 12:13:32 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 25 --sval lh.w-g.pct.mgh.fsaverage.mgh --tval lh.w-g.pct.mgh.fwhm25.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 25 --sval lh.w-g.pct.mgh.fsaverage.mgh --tval lh.w-g.pct.mgh.fwhm25.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = lh.w-g.pct.mgh.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = lh.w-g.pct.mgh.fwhm25.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = lh
trghemi    = lh
frame      = 0
fwhm-in    = 0
fwhm-out   = 25
label-src  = lh.cortex.label
label-trg  = lh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Loading source data
Reading source subject label mask lh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 25.000000,
 std = 10.616523, with 460 iterations of nearest-neighbor smoothing
Reading target space mask label lh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 460
Saving target data
Saving to lh.w-g.pct.mgh.fwhm25.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh thickness fwhm0 fsaverage Thu Jan  9 12:13:42 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 0 --sval rh.thickness.fsaverage.mgh --tval rh.thickness.fwhm0.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 0 --sval rh.thickness.fsaverage.mgh --tval rh.thickness.fwhm0.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.thickness.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.thickness.fwhm0.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 0
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Reading target space mask label rh.cortex.label
masking the input
Saving target data
Saving to rh.thickness.fwhm0.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh thickness fwhm5 fsaverage Thu Jan  9 12:13:46 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 5 --sval rh.thickness.fsaverage.mgh --tval rh.thickness.fwhm5.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 5 --sval rh.thickness.fsaverage.mgh --tval rh.thickness.fwhm5.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.thickness.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.thickness.fwhm5.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 5
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 5.000000,
 std = 2.123305, with 18 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 18
Saving target data
Saving to rh.thickness.fwhm5.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh thickness fwhm10 fsaverage Thu Jan  9 12:13:53 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 10 --sval rh.thickness.fsaverage.mgh --tval rh.thickness.fwhm10.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 10 --sval rh.thickness.fsaverage.mgh --tval rh.thickness.fwhm10.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.thickness.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.thickness.fwhm10.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 10
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 10.000000,
 std = 4.246609, with 74 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 74
Saving target data
Saving to rh.thickness.fwhm10.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh thickness fwhm15 fsaverage Thu Jan  9 12:14:01 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 15 --sval rh.thickness.fsaverage.mgh --tval rh.thickness.fwhm15.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 15 --sval rh.thickness.fsaverage.mgh --tval rh.thickness.fwhm15.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.thickness.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.thickness.fwhm15.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 15
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 15.000000,
 std = 6.369914, with 166 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 166
Saving target data
Saving to rh.thickness.fwhm15.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh thickness fwhm20 fsaverage Thu Jan  9 12:14:09 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 20 --sval rh.thickness.fsaverage.mgh --tval rh.thickness.fwhm20.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 20 --sval rh.thickness.fsaverage.mgh --tval rh.thickness.fwhm20.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.thickness.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.thickness.fwhm20.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 20
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 20.000000,
 std = 8.493218, with 294 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 294
Saving target data
Saving to rh.thickness.fwhm20.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh thickness fwhm25 fsaverage Thu Jan  9 12:14:18 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 25 --sval rh.thickness.fsaverage.mgh --tval rh.thickness.fwhm25.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 25 --sval rh.thickness.fsaverage.mgh --tval rh.thickness.fwhm25.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.thickness.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.thickness.fwhm25.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 25
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 25.000000,
 std = 10.616523, with 460 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 460
Saving target data
Saving to rh.thickness.fwhm25.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh area fwhm0 fsaverage Thu Jan  9 12:14:28 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 0 --sval rh.area.fsaverage.mgh --tval rh.area.fwhm0.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 0 --sval rh.area.fsaverage.mgh --tval rh.area.fwhm0.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.area.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.area.fwhm0.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 0
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Reading target space mask label rh.cortex.label
masking the input
Saving target data
Saving to rh.area.fwhm0.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh area fwhm5 fsaverage Thu Jan  9 12:14:32 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 5 --sval rh.area.fsaverage.mgh --tval rh.area.fwhm5.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 5 --sval rh.area.fsaverage.mgh --tval rh.area.fwhm5.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.area.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.area.fwhm5.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 5
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 5.000000,
 std = 2.123305, with 18 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 18
Saving target data
Saving to rh.area.fwhm5.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh area fwhm10 fsaverage Thu Jan  9 12:14:39 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 10 --sval rh.area.fsaverage.mgh --tval rh.area.fwhm10.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 10 --sval rh.area.fsaverage.mgh --tval rh.area.fwhm10.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.area.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.area.fwhm10.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 10
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 10.000000,
 std = 4.246609, with 74 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 74
Saving target data
Saving to rh.area.fwhm10.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh area fwhm15 fsaverage Thu Jan  9 12:14:47 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 15 --sval rh.area.fsaverage.mgh --tval rh.area.fwhm15.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 15 --sval rh.area.fsaverage.mgh --tval rh.area.fwhm15.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.area.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.area.fwhm15.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 15
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 15.000000,
 std = 6.369914, with 166 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 166
Saving target data
Saving to rh.area.fwhm15.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh area fwhm20 fsaverage Thu Jan  9 12:14:55 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 20 --sval rh.area.fsaverage.mgh --tval rh.area.fwhm20.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 20 --sval rh.area.fsaverage.mgh --tval rh.area.fwhm20.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.area.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.area.fwhm20.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 20
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 20.000000,
 std = 8.493218, with 294 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 294
Saving target data
Saving to rh.area.fwhm20.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh area fwhm25 fsaverage Thu Jan  9 12:15:04 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 25 --sval rh.area.fsaverage.mgh --tval rh.area.fwhm25.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 25 --sval rh.area.fsaverage.mgh --tval rh.area.fwhm25.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.area.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.area.fwhm25.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 25
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 25.000000,
 std = 10.616523, with 460 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 460
Saving target data
Saving to rh.area.fwhm25.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh area.pial fwhm0 fsaverage Thu Jan  9 12:15:14 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 0 --sval rh.area.pial.fsaverage.mgh --tval rh.area.pial.fwhm0.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 0 --sval rh.area.pial.fsaverage.mgh --tval rh.area.pial.fwhm0.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.area.pial.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.area.pial.fwhm0.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 0
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Reading target space mask label rh.cortex.label
masking the input
Saving target data
Saving to rh.area.pial.fwhm0.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh area.pial fwhm5 fsaverage Thu Jan  9 12:15:17 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 5 --sval rh.area.pial.fsaverage.mgh --tval rh.area.pial.fwhm5.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 5 --sval rh.area.pial.fsaverage.mgh --tval rh.area.pial.fwhm5.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.area.pial.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.area.pial.fwhm5.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 5
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 5.000000,
 std = 2.123305, with 18 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 18
Saving target data
Saving to rh.area.pial.fwhm5.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh area.pial fwhm10 fsaverage Thu Jan  9 12:15:25 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 10 --sval rh.area.pial.fsaverage.mgh --tval rh.area.pial.fwhm10.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 10 --sval rh.area.pial.fsaverage.mgh --tval rh.area.pial.fwhm10.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.area.pial.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.area.pial.fwhm10.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 10
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 10.000000,
 std = 4.246609, with 74 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 74
Saving target data
Saving to rh.area.pial.fwhm10.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh area.pial fwhm15 fsaverage Thu Jan  9 12:15:33 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 15 --sval rh.area.pial.fsaverage.mgh --tval rh.area.pial.fwhm15.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 15 --sval rh.area.pial.fsaverage.mgh --tval rh.area.pial.fwhm15.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.area.pial.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.area.pial.fwhm15.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 15
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 15.000000,
 std = 6.369914, with 166 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 166
Saving target data
Saving to rh.area.pial.fwhm15.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh area.pial fwhm20 fsaverage Thu Jan  9 12:15:41 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 20 --sval rh.area.pial.fsaverage.mgh --tval rh.area.pial.fwhm20.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 20 --sval rh.area.pial.fsaverage.mgh --tval rh.area.pial.fwhm20.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.area.pial.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.area.pial.fwhm20.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 20
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 20.000000,
 std = 8.493218, with 294 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 294
Saving target data
Saving to rh.area.pial.fwhm20.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh area.pial fwhm25 fsaverage Thu Jan  9 12:15:50 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 25 --sval rh.area.pial.fsaverage.mgh --tval rh.area.pial.fwhm25.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 25 --sval rh.area.pial.fsaverage.mgh --tval rh.area.pial.fwhm25.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.area.pial.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.area.pial.fwhm25.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 25
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 25.000000,
 std = 10.616523, with 460 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 460
Saving target data
Saving to rh.area.pial.fwhm25.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh volume fwhm0 fsaverage Thu Jan  9 12:15:59 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 0 --sval rh.volume.fsaverage.mgh --tval rh.volume.fwhm0.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 0 --sval rh.volume.fsaverage.mgh --tval rh.volume.fwhm0.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.volume.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.volume.fwhm0.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 0
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Reading target space mask label rh.cortex.label
masking the input
Saving target data
Saving to rh.volume.fwhm0.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh volume fwhm5 fsaverage Thu Jan  9 12:16:03 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 5 --sval rh.volume.fsaverage.mgh --tval rh.volume.fwhm5.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 5 --sval rh.volume.fsaverage.mgh --tval rh.volume.fwhm5.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.volume.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.volume.fwhm5.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 5
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 5.000000,
 std = 2.123305, with 18 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 18
Saving target data
Saving to rh.volume.fwhm5.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh volume fwhm10 fsaverage Thu Jan  9 12:16:11 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 10 --sval rh.volume.fsaverage.mgh --tval rh.volume.fwhm10.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 10 --sval rh.volume.fsaverage.mgh --tval rh.volume.fwhm10.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.volume.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.volume.fwhm10.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 10
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 10.000000,
 std = 4.246609, with 74 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 74
Saving target data
Saving to rh.volume.fwhm10.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh volume fwhm15 fsaverage Thu Jan  9 12:16:18 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 15 --sval rh.volume.fsaverage.mgh --tval rh.volume.fwhm15.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 15 --sval rh.volume.fsaverage.mgh --tval rh.volume.fwhm15.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.volume.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.volume.fwhm15.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 15
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 15.000000,
 std = 6.369914, with 166 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 166
Saving target data
Saving to rh.volume.fwhm15.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh volume fwhm20 fsaverage Thu Jan  9 12:16:27 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 20 --sval rh.volume.fsaverage.mgh --tval rh.volume.fwhm20.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 20 --sval rh.volume.fsaverage.mgh --tval rh.volume.fwhm20.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.volume.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.volume.fwhm20.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 20
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 20.000000,
 std = 8.493218, with 294 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 294
Saving target data
Saving to rh.volume.fwhm20.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh volume fwhm25 fsaverage Thu Jan  9 12:16:35 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 25 --sval rh.volume.fsaverage.mgh --tval rh.volume.fwhm25.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 25 --sval rh.volume.fsaverage.mgh --tval rh.volume.fwhm25.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.volume.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.volume.fwhm25.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 25
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 25.000000,
 std = 10.616523, with 460 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 460
Saving target data
Saving to rh.volume.fwhm25.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh curv fwhm0 fsaverage Thu Jan  9 12:16:45 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 0 --sval rh.curv.fsaverage.mgh --tval rh.curv.fwhm0.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 0 --sval rh.curv.fsaverage.mgh --tval rh.curv.fwhm0.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.curv.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.curv.fwhm0.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 0
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Reading target space mask label rh.cortex.label
masking the input
Saving target data
Saving to rh.curv.fwhm0.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh curv fwhm5 fsaverage Thu Jan  9 12:16:49 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 5 --sval rh.curv.fsaverage.mgh --tval rh.curv.fwhm5.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 5 --sval rh.curv.fsaverage.mgh --tval rh.curv.fwhm5.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.curv.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.curv.fwhm5.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 5
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 5.000000,
 std = 2.123305, with 18 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 18
Saving target data
Saving to rh.curv.fwhm5.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh curv fwhm10 fsaverage Thu Jan  9 12:16:57 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 10 --sval rh.curv.fsaverage.mgh --tval rh.curv.fwhm10.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 10 --sval rh.curv.fsaverage.mgh --tval rh.curv.fwhm10.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.curv.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.curv.fwhm10.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 10
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 10.000000,
 std = 4.246609, with 74 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 74
Saving target data
Saving to rh.curv.fwhm10.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh curv fwhm15 fsaverage Thu Jan  9 12:17:05 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 15 --sval rh.curv.fsaverage.mgh --tval rh.curv.fwhm15.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 15 --sval rh.curv.fsaverage.mgh --tval rh.curv.fwhm15.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.curv.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.curv.fwhm15.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 15
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 15.000000,
 std = 6.369914, with 166 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 166
Saving target data
Saving to rh.curv.fwhm15.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh curv fwhm20 fsaverage Thu Jan  9 12:17:13 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 20 --sval rh.curv.fsaverage.mgh --tval rh.curv.fwhm20.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 20 --sval rh.curv.fsaverage.mgh --tval rh.curv.fwhm20.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.curv.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.curv.fwhm20.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 20
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 20.000000,
 std = 8.493218, with 294 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 294
Saving target data
Saving to rh.curv.fwhm20.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh curv fwhm25 fsaverage Thu Jan  9 12:17:22 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 25 --sval rh.curv.fsaverage.mgh --tval rh.curv.fwhm25.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 25 --sval rh.curv.fsaverage.mgh --tval rh.curv.fwhm25.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.curv.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.curv.fwhm25.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 25
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 25.000000,
 std = 10.616523, with 460 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 460
Saving target data
Saving to rh.curv.fwhm25.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh sulc fwhm0 fsaverage Thu Jan  9 12:17:31 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 0 --sval rh.sulc.fsaverage.mgh --tval rh.sulc.fwhm0.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 0 --sval rh.sulc.fsaverage.mgh --tval rh.sulc.fwhm0.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.sulc.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.sulc.fwhm0.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 0
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Reading target space mask label rh.cortex.label
masking the input
Saving target data
Saving to rh.sulc.fwhm0.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh sulc fwhm5 fsaverage Thu Jan  9 12:17:35 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 5 --sval rh.sulc.fsaverage.mgh --tval rh.sulc.fwhm5.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 5 --sval rh.sulc.fsaverage.mgh --tval rh.sulc.fwhm5.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.sulc.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.sulc.fwhm5.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 5
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 5.000000,
 std = 2.123305, with 18 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 18
Saving target data
Saving to rh.sulc.fwhm5.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh sulc fwhm10 fsaverage Thu Jan  9 12:17:42 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 10 --sval rh.sulc.fsaverage.mgh --tval rh.sulc.fwhm10.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 10 --sval rh.sulc.fsaverage.mgh --tval rh.sulc.fwhm10.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.sulc.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.sulc.fwhm10.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 10
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 10.000000,
 std = 4.246609, with 74 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 74
Saving target data
Saving to rh.sulc.fwhm10.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh sulc fwhm15 fsaverage Thu Jan  9 12:17:50 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 15 --sval rh.sulc.fsaverage.mgh --tval rh.sulc.fwhm15.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 15 --sval rh.sulc.fsaverage.mgh --tval rh.sulc.fwhm15.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.sulc.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.sulc.fwhm15.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 15
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 15.000000,
 std = 6.369914, with 166 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 166
Saving target data
Saving to rh.sulc.fwhm15.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh sulc fwhm20 fsaverage Thu Jan  9 12:17:58 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 20 --sval rh.sulc.fsaverage.mgh --tval rh.sulc.fwhm20.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 20 --sval rh.sulc.fsaverage.mgh --tval rh.sulc.fwhm20.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.sulc.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.sulc.fwhm20.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 20
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 20.000000,
 std = 8.493218, with 294 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 294
Saving target data
Saving to rh.sulc.fwhm20.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh sulc fwhm25 fsaverage Thu Jan  9 12:18:07 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 25 --sval rh.sulc.fsaverage.mgh --tval rh.sulc.fwhm25.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 25 --sval rh.sulc.fsaverage.mgh --tval rh.sulc.fwhm25.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.sulc.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.sulc.fwhm25.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 25
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 25.000000,
 std = 10.616523, with 460 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 460
Saving target data
Saving to rh.sulc.fwhm25.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh white.K fwhm0 fsaverage Thu Jan  9 12:18:16 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 0 --sval rh.white.K.fsaverage.mgh --tval rh.white.K.fwhm0.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 0 --sval rh.white.K.fsaverage.mgh --tval rh.white.K.fwhm0.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.white.K.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.white.K.fwhm0.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 0
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Reading target space mask label rh.cortex.label
masking the input
Saving target data
Saving to rh.white.K.fwhm0.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh white.K fwhm5 fsaverage Thu Jan  9 12:18:20 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 5 --sval rh.white.K.fsaverage.mgh --tval rh.white.K.fwhm5.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 5 --sval rh.white.K.fsaverage.mgh --tval rh.white.K.fwhm5.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.white.K.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.white.K.fwhm5.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 5
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 5.000000,
 std = 2.123305, with 18 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 18
Saving target data
Saving to rh.white.K.fwhm5.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh white.K fwhm10 fsaverage Thu Jan  9 12:18:27 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 10 --sval rh.white.K.fsaverage.mgh --tval rh.white.K.fwhm10.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 10 --sval rh.white.K.fsaverage.mgh --tval rh.white.K.fwhm10.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.white.K.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.white.K.fwhm10.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 10
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 10.000000,
 std = 4.246609, with 74 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 74
Saving target data
Saving to rh.white.K.fwhm10.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh white.K fwhm15 fsaverage Thu Jan  9 12:18:35 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 15 --sval rh.white.K.fsaverage.mgh --tval rh.white.K.fwhm15.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 15 --sval rh.white.K.fsaverage.mgh --tval rh.white.K.fwhm15.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.white.K.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.white.K.fwhm15.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 15
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 15.000000,
 std = 6.369914, with 166 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 166
Saving target data
Saving to rh.white.K.fwhm15.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh white.K fwhm20 fsaverage Thu Jan  9 12:18:43 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 20 --sval rh.white.K.fsaverage.mgh --tval rh.white.K.fwhm20.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 20 --sval rh.white.K.fsaverage.mgh --tval rh.white.K.fwhm20.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.white.K.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.white.K.fwhm20.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 20
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 20.000000,
 std = 8.493218, with 294 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 294
Saving target data
Saving to rh.white.K.fwhm20.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh white.K fwhm25 fsaverage Thu Jan  9 12:18:52 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 25 --sval rh.white.K.fsaverage.mgh --tval rh.white.K.fwhm25.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 25 --sval rh.white.K.fsaverage.mgh --tval rh.white.K.fwhm25.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.white.K.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.white.K.fwhm25.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 25
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 25.000000,
 std = 10.616523, with 460 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 460
Saving target data
Saving to rh.white.K.fwhm25.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh white.H fwhm0 fsaverage Thu Jan  9 12:19:01 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 0 --sval rh.white.H.fsaverage.mgh --tval rh.white.H.fwhm0.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 0 --sval rh.white.H.fsaverage.mgh --tval rh.white.H.fwhm0.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.white.H.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.white.H.fwhm0.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 0
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Reading target space mask label rh.cortex.label
masking the input
Saving target data
Saving to rh.white.H.fwhm0.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh white.H fwhm5 fsaverage Thu Jan  9 12:19:05 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 5 --sval rh.white.H.fsaverage.mgh --tval rh.white.H.fwhm5.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 5 --sval rh.white.H.fsaverage.mgh --tval rh.white.H.fwhm5.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.white.H.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.white.H.fwhm5.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 5
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 5.000000,
 std = 2.123305, with 18 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 18
Saving target data
Saving to rh.white.H.fwhm5.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh white.H fwhm10 fsaverage Thu Jan  9 12:19:12 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 10 --sval rh.white.H.fsaverage.mgh --tval rh.white.H.fwhm10.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 10 --sval rh.white.H.fsaverage.mgh --tval rh.white.H.fwhm10.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.white.H.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.white.H.fwhm10.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 10
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 10.000000,
 std = 4.246609, with 74 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 74
Saving target data
Saving to rh.white.H.fwhm10.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh white.H fwhm15 fsaverage Thu Jan  9 12:19:20 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 15 --sval rh.white.H.fsaverage.mgh --tval rh.white.H.fwhm15.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 15 --sval rh.white.H.fsaverage.mgh --tval rh.white.H.fwhm15.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.white.H.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.white.H.fwhm15.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 15
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 15.000000,
 std = 6.369914, with 166 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 166
Saving target data
Saving to rh.white.H.fwhm15.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh white.H fwhm20 fsaverage Thu Jan  9 12:19:28 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 20 --sval rh.white.H.fsaverage.mgh --tval rh.white.H.fwhm20.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 20 --sval rh.white.H.fsaverage.mgh --tval rh.white.H.fwhm20.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.white.H.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.white.H.fwhm20.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 20
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 20.000000,
 std = 8.493218, with 294 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 294
Saving target data
Saving to rh.white.H.fwhm20.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh white.H fwhm25 fsaverage Thu Jan  9 12:19:37 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 25 --sval rh.white.H.fsaverage.mgh --tval rh.white.H.fwhm25.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 25 --sval rh.white.H.fsaverage.mgh --tval rh.white.H.fwhm25.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.white.H.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.white.H.fwhm25.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 25
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 25.000000,
 std = 10.616523, with 460 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 460
Saving target data
Saving to rh.white.H.fwhm25.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh jacobian_white fwhm0 fsaverage Thu Jan  9 12:19:46 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 0 --sval rh.jacobian_white.fsaverage.mgh --tval rh.jacobian_white.fwhm0.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 0 --sval rh.jacobian_white.fsaverage.mgh --tval rh.jacobian_white.fwhm0.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.jacobian_white.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.jacobian_white.fwhm0.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 0
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Reading target space mask label rh.cortex.label
masking the input
Saving target data
Saving to rh.jacobian_white.fwhm0.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh jacobian_white fwhm5 fsaverage Thu Jan  9 12:19:50 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 5 --sval rh.jacobian_white.fsaverage.mgh --tval rh.jacobian_white.fwhm5.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 5 --sval rh.jacobian_white.fsaverage.mgh --tval rh.jacobian_white.fwhm5.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.jacobian_white.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.jacobian_white.fwhm5.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 5
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 5.000000,
 std = 2.123305, with 18 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 18
Saving target data
Saving to rh.jacobian_white.fwhm5.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh jacobian_white fwhm10 fsaverage Thu Jan  9 12:19:57 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 10 --sval rh.jacobian_white.fsaverage.mgh --tval rh.jacobian_white.fwhm10.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 10 --sval rh.jacobian_white.fsaverage.mgh --tval rh.jacobian_white.fwhm10.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.jacobian_white.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.jacobian_white.fwhm10.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 10
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 10.000000,
 std = 4.246609, with 74 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 74
Saving target data
Saving to rh.jacobian_white.fwhm10.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh jacobian_white fwhm15 fsaverage Thu Jan  9 12:20:05 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 15 --sval rh.jacobian_white.fsaverage.mgh --tval rh.jacobian_white.fwhm15.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 15 --sval rh.jacobian_white.fsaverage.mgh --tval rh.jacobian_white.fwhm15.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.jacobian_white.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.jacobian_white.fwhm15.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 15
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 15.000000,
 std = 6.369914, with 166 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 166
Saving target data
Saving to rh.jacobian_white.fwhm15.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh jacobian_white fwhm20 fsaverage Thu Jan  9 12:20:13 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 20 --sval rh.jacobian_white.fsaverage.mgh --tval rh.jacobian_white.fwhm20.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 20 --sval rh.jacobian_white.fsaverage.mgh --tval rh.jacobian_white.fwhm20.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.jacobian_white.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.jacobian_white.fwhm20.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 20
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 20.000000,
 std = 8.493218, with 294 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 294
Saving target data
Saving to rh.jacobian_white.fwhm20.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh jacobian_white fwhm25 fsaverage Thu Jan  9 12:20:23 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 25 --sval rh.jacobian_white.fsaverage.mgh --tval rh.jacobian_white.fwhm25.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 25 --sval rh.jacobian_white.fsaverage.mgh --tval rh.jacobian_white.fwhm25.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.jacobian_white.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.jacobian_white.fwhm25.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 25
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 25.000000,
 std = 10.616523, with 460 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 460
Saving target data
Saving to rh.jacobian_white.fwhm25.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh w-g.pct.mgh fwhm0 fsaverage Thu Jan  9 12:20:32 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 0 --sval rh.w-g.pct.mgh.fsaverage.mgh --tval rh.w-g.pct.mgh.fwhm0.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 0 --sval rh.w-g.pct.mgh.fsaverage.mgh --tval rh.w-g.pct.mgh.fwhm0.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.w-g.pct.mgh.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.w-g.pct.mgh.fwhm0.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 0
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Reading target space mask label rh.cortex.label
masking the input
Saving target data
Saving to rh.w-g.pct.mgh.fwhm0.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh w-g.pct.mgh fwhm5 fsaverage Thu Jan  9 12:20:36 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 5 --sval rh.w-g.pct.mgh.fsaverage.mgh --tval rh.w-g.pct.mgh.fwhm5.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 5 --sval rh.w-g.pct.mgh.fsaverage.mgh --tval rh.w-g.pct.mgh.fwhm5.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.w-g.pct.mgh.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.w-g.pct.mgh.fwhm5.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 5
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 5.000000,
 std = 2.123305, with 18 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 18
Saving target data
Saving to rh.w-g.pct.mgh.fwhm5.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh w-g.pct.mgh fwhm10 fsaverage Thu Jan  9 12:20:43 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 10 --sval rh.w-g.pct.mgh.fsaverage.mgh --tval rh.w-g.pct.mgh.fwhm10.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 10 --sval rh.w-g.pct.mgh.fsaverage.mgh --tval rh.w-g.pct.mgh.fwhm10.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.w-g.pct.mgh.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.w-g.pct.mgh.fwhm10.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 10
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 10.000000,
 std = 4.246609, with 74 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 74
Saving target data
Saving to rh.w-g.pct.mgh.fwhm10.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh w-g.pct.mgh fwhm15 fsaverage Thu Jan  9 12:20:51 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 15 --sval rh.w-g.pct.mgh.fsaverage.mgh --tval rh.w-g.pct.mgh.fwhm15.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 15 --sval rh.w-g.pct.mgh.fsaverage.mgh --tval rh.w-g.pct.mgh.fwhm15.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.w-g.pct.mgh.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.w-g.pct.mgh.fwhm15.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 15
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 15.000000,
 std = 6.369914, with 166 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 166
Saving target data
Saving to rh.w-g.pct.mgh.fwhm15.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh w-g.pct.mgh fwhm20 fsaverage Thu Jan  9 12:20:59 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 20 --sval rh.w-g.pct.mgh.fsaverage.mgh --tval rh.w-g.pct.mgh.fwhm20.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 20 --sval rh.w-g.pct.mgh.fsaverage.mgh --tval rh.w-g.pct.mgh.fwhm20.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.w-g.pct.mgh.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.w-g.pct.mgh.fwhm20.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 20
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 20.000000,
 std = 8.493218, with 294 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 294
Saving target data
Saving to rh.w-g.pct.mgh.fwhm20.fsaverage.mgh
#--------------------------------------------
#@# Qdec Cache surf2surf rh w-g.pct.mgh fwhm25 fsaverage Thu Jan  9 12:21:08 CST 2020

 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 25 --sval rh.w-g.pct.mgh.fsaverage.mgh --tval rh.w-g.pct.mgh.fwhm25.fsaverage.mgh --cortex


$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/surf
mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 25 --sval rh.w-g.pct.mgh.fsaverage.mgh --tval rh.w-g.pct.mgh.fwhm25.fsaverage.mgh --cortex

sysname  Linux
hostname c137.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
srcsubject = fsaverage
srcval     = rh.w-g.pct.mgh.fsaverage.mgh
srctype    =
trgsubject = fsaverage
trgval     = rh.w-g.pct.mgh.fwhm25.fsaverage.mgh
trgtype    =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi    = rh
trghemi    = rh
frame      = 0
fwhm-in    = 0
fwhm-out   = 25
label-src  = rh.cortex.label
label-trg  = rh.cortex.label
OKToRevFaceOrder  = 1
UseDualHemi = 0
Reading source surface reg /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Loading source data
Reading source subject label mask rh.cortex.label
masking the input
INFO: trgsubject = srcsubject
Approximating gaussian smoothing of target with fwhm = 25.000000,
 std = 10.616523, with 460 iterations of nearest-neighbor smoothing
Reading target space mask label rh.cortex.label
Pruning output smoothing mask by thr: 1.175494e-38
NN smoothing output with n = 460
Saving target data
Saving to rh.w-g.pct.mgh.fwhm25.fsaverage.mgh

Started at Wed Jan 8 15:41:35 CST 2020
Ended   at Thu Jan 9 12:21:18 CST 2020
#@#%# recon-all-run-time-hours 20.662
recon-all -s 066 finished without error at Thu Jan  9 12:21:18 CST 2020



New invocation of recon-all



Fri Jan 10 10:44:31 CST 2020
/study2/emowrap/data/freesurfer/subjects/066
/apps/x86_64_sci7/freesurfer-6.0.0/bin/recon-all
-subjid 066 -autorecon2-cp -autorecon3
subjid 066
setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Actual FREESURFER_HOME /apps/freesurfer-6.0.0/x86_64_sci7
build-stamp.txt: freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c
Linux c139.keck.waisman.wisc.edu 3.10.0-1062.9.1.el7.x86_64 #1 SMP Thu Dec 5 14:44:59 CST 2019 x86_64 x86_64 x86_64 GNU/Linux
cputime      unlimited
filesize     unlimited
datasize     3145728 kbytes
stacksize    unlimited
coredumpsize 0 kbytes
memoryuse    3145728 kbytes
vmemoryuse   3145728 kbytes
descriptors  32767
memorylocked 64 kbytes
maxproc      1030757
maxlocks     unlimited
maxsignal    1030757
maxmessage   819200
maxnice      0
maxrtprio    0
maxrttime    unlimited

              total        used        free      shared  buff/cache   available
Mem:      263971176    45491700    81724172      140260   136755304   217539088
Swap:     268435448        8076   268427372

########################################
program versions used
$Id: recon-all,v 1.580.2.16 2017/01/18 14:11:24 zkaufman Exp $
$Id: mri_motion_correct.fsl,v 1.15 2016/02/16 17:17:20 zkaufman Exp $
mri_convert.bin -all-info
ProgramName: mri_convert.bin  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/10-16:44:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
FLIRT version 5.5
$Id: talairach_avi,v 1.13 2015/12/23 04:25:17 greve Exp $
mri_convert.bin --version
stable6
ProgramName: tkregister2_cmdl  ProgramArguments: --all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/10-16:44:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: tkregister2.c,v 1.132.2.1 2016/08/02 21:17:29 greve Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
Program nu_correct, built from:
Package MNI N3, version 1.12.0, compiled by nicks@terrier (x86_64-unknown-linux-gnu) on 2015-06-19 at 01:25:34
ProgramName: mri_make_uchar  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/10-16:44:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_make_uchar.c,v 1.4 2011/03/02 00:04:14 nicks Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_normalize  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/10-16:44:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_normalize.c,v 1.88.2.3 2016/12/27 16:47:13 zkaufman Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_watershed  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/10-16:44:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_watershed.cpp,v 1.103 2016/06/17 18:00:49 zkaufman Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_gcut  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/10-16:44:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_gcut.cpp,v 1.14 2011/03/02 00:04:16 nicks Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_segment  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/10-16:44:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_segment.c,v 1.43.2.1 2016/10/27 22:24:52 zkaufman Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_label2label.bin  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/10-16:44:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_label2label.c,v 1.48.2.2 2016/12/12 14:15:26 zkaufman Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_em_register  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/10-16:44:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_em_register.c,v 1.105.2.1 2016/10/27 22:25:10 zkaufman Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_ca_normalize  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/10-16:44:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_ca_normalize.c,v 1.67.2.2 2016/10/27 22:25:09 zkaufman Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_ca_register  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/10-16:44:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_ca_register.c,v 1.96.2.3 2016/10/27 22:25:10 zkaufman Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_ca_label  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/10-16:44:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_ca_label.c,v 1.113.2.2 2016/10/27 22:25:10 zkaufman Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_pretess  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/10-16:44:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_pretess.c,v 1.22 2013/08/30 18:12:25 mreuter Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_fill  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/10-16:44:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_fill.c,v 1.119 2011/10/25 14:09:58 fischl Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_tessellate  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/10-16:44:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_tessellate.c,v 1.38.2.1 2016/07/26 18:46:38 zkaufman Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_concatenate_lta.bin  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/10-16:44:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_concatenate_lta.c,v 1.16 2015/11/21 00:06:20 greve Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_normalize_tp2  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/10-16:44:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_normalize_tp2.c,v 1.8 2011/03/02 00:04:23 nicks Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_smooth  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/10-16:44:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_smooth.c,v 1.30 2014/01/21 18:48:21 fischl Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_inflate  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/10-16:44:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_inflate.c,v 1.45 2016/01/20 23:42:15 greve Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_curvature  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/10-16:44:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_curvature.c,v 1.31 2011/03/02 00:04:30 nicks Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_sphere  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/10-16:44:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_sphere.c,v 1.61 2016/01/20 23:42:15 greve Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_fix_topology  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/10-16:44:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_fix_topology.c,v 1.50.2.1 2016/10/27 22:25:58 zkaufman Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_topo_fixer  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/10-16:44:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_topo_fixer.cpp,v 1.29 2011/03/02 00:04:34 nicks Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_ca_label  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/10-16:44:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_ca_label.c,v 1.37 2014/02/04 17:46:42 fischl Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_euler_number  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/10-16:44:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_euler_number.c,v 1.10 2013/01/14 22:39:14 greve Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_make_surfaces  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/10-16:44:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_make_surfaces.c,v 1.164.2.4 2016/12/13 22:26:32 zkaufman Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_register  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/10-16:44:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_register.c,v 1.63 2016/01/20 23:43:04 greve Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_volmask  ProgramArguments: --all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/10-16:44:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_volmask.cpp,v 1.26.2.2 2016/11/18 20:05:18 zkaufman Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_anatomical_stats  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/10-16:44:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_anatomical_stats.c,v 1.79 2016/03/14 15:15:34 greve Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mrisp_paint  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/10-16:44:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mrisp_paint.c,v 1.12 2016/03/22 14:47:57 fischl Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_curvature_stats  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/10-16:44:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_curvature_stats.c,v 1.65 2015/06/04 20:50:51 nicks Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_calc  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/10-16:44:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_calc.c,v 1.54.2.1 2016/09/27 18:51:28 greve Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
$Id: mri_robust_register.cpp,v 1.77 2016/01/20 23:36:17 greve Exp $

ProgramName: mri_robust_register.bin  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/10-16:44:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_robust_register.cpp,v 1.77 2016/01/20 23:36:17 greve Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
$Id: mri_robust_template.cpp,v 1.54 2016/05/05 21:17:08 mreuter Exp $

ProgramName: mri_robust_template  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/10-16:44:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_robust_template.cpp,v 1.54 2016/05/05 21:17:08 mreuter Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_and  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/10-16:44:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_and.c,v 1.4 2011/03/02 00:04:13 nicks Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_or  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/10-16:44:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_or.c,v 1.5 2013/03/20 15:03:29 lzollei Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_fuse_segmentations  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/10-16:44:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_fuse_segmentations.c,v 1.8 2011/03/02 00:04:15 nicks Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_segstats  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/10-16:44:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_segstats.c,v 1.121 2016/05/31 17:27:11 greve Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_relabel_hypointensities  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/10-16:44:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_relabel_hypointensities.c,v 1.13 2015/05/15 18:44:10 nicks Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
#######################################
GCADIR /apps/x86_64_sci7/freesurfer-6.0.0/average
GCA RB_all_2016-05-10.vc700.gca
GCASkull RB_all_withskull_2016-05-10.vc700.gca
AvgCurvTif folding.atlas.acfb40.noaparc.i12.2016-08-02.tif
GCSDIR /apps/x86_64_sci7/freesurfer-6.0.0/average
GCS DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs
#######################################
#--------------------------------------------
#@# Intensity Normalization2 Fri Jan 10 10:44:31 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/mri

 mri_normalize -f /study2/emowrap/data/freesurfer/subjects/066/tmp/control.dat -mprage -aseg aseg.presurf.mgz -mask brainmask.mgz norm.mgz brain.mgz

using control points from file /study2/emowrap/data/freesurfer/subjects/066/tmp/control.dat...
assuming input volume is MGH (Van der Kouwe) MP-RAGE
using segmentation for initial intensity normalization
using MR volume brainmask.mgz to mask input volume...
reading from norm.mgz...
Reading aseg aseg.presurf.mgz
normalizing image...
Reading 98 control points...
only using 98 control points from file, mean 91.4, scaling by 1.20...
building Voronoi diagram...
performing soap bubble smoothing, sigma = 8...
processing with aseg
removing outliers in the aseg WM...
1865 control points removed
Building bias image
building Voronoi diagram...
performing soap bubble smoothing, sigma = 0...
Smoothing with sigma 8
Applying bias correction
building Voronoi diagram...
performing soap bubble smoothing, sigma = 8...

Iterating 2 times
---------------------------------
3d normalization pass 1 of 2
white matter peak found at 110
white matter peak found at 109
gm peak at 70 (70), valley at 47 (47)
csf peak at 12, setting threshold to 50
building Voronoi diagram...
performing soap bubble smoothing, sigma = 8...
---------------------------------
3d normalization pass 2 of 2
white matter peak found at 110
white matter peak found at 110
gm peak at 72 (72), valley at 47 (47)
csf peak at 11, setting threshold to 51
building Voronoi diagram...
performing soap bubble smoothing, sigma = 8...
Done iterating ---------------------------------
writing output to brain.mgz
3D bias adjustment took 6 minutes and 23 seconds.
#--------------------------------------------
#@# Mask BFS Fri Jan 10 10:50:59 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/mri

 mri_mask -T 5 brain.mgz brainmask.mgz brain.finalsurfs.mgz

threshold mask volume at 5
DoAbs = 0
Found 1547130 voxels in mask (pct=  9.22)
Writing masked volume to brain.finalsurfs.mgz...done.
#--------------------------------------------
#@# WM Segmentation Fri Jan 10 10:51:02 CST 2020

 mri_binarize --i wm.mgz --min 255 --max 255 --o wm255.mgz --count wm255.txt


$Id: mri_binarize.c,v 1.43 2016/06/09 20:46:21 greve Exp $
cwd /study2/emowrap/data/freesurfer/subjects/066/mri
cmdline mri_binarize.bin --i wm.mgz --min 255 --max 255 --o wm255.mgz --count wm255.txt
sysname  Linux
hostname c139.keck.waisman.wisc.edu
machine  x86_64
user     quinlan

input      wm.mgz
frame      0
nErode3d   0
nErode2d   0
output     wm255.mgz
Binarizing based on threshold
min        255
max        255
binval        1
binvalnot     0
fstart = 0, fend = 0, nframes = 1
Found 0 values in range
Counting number of voxels in first frame
Found 0 voxels in final mask
Count: 0 0.000000 16777216 0.000000
mri_binarize done

 mri_binarize --i wm.mgz --min 1 --max 1 --o wm1.mgz --count wm1.txt


$Id: mri_binarize.c,v 1.43 2016/06/09 20:46:21 greve Exp $
cwd /study2/emowrap/data/freesurfer/subjects/066/mri
cmdline mri_binarize.bin --i wm.mgz --min 1 --max 1 --o wm1.mgz --count wm1.txt
sysname  Linux
hostname c139.keck.waisman.wisc.edu
machine  x86_64
user     quinlan

input      wm.mgz
frame      0
nErode3d   0
nErode2d   0
output     wm1.mgz
Binarizing based on threshold
min        1
max        1
binval        1
binvalnot     0
fstart = 0, fend = 0, nframes = 1
Found 0 values in range
Counting number of voxels in first frame
Found 0 voxels in final mask
Count: 0 0.000000 16777216 0.000000
mri_binarize done

 rm wm1.mgz wm255.mgz


 mri_segment -keep -mprage brain.mgz wm.seg.mgz

preserving editing changes in output volume...
doing initial intensity segmentation...
using local statistics to label ambiguous voxels...
computing class statistics for intensity windows...
WM (105.0): 105.5 +- 5.9 [79.0 --> 125.0]
GM (69.0) : 66.5 +- 11.8 [30.0 --> 95.0]
setting bottom of white matter range to 78.3
setting top of gray matter range to 90.2
doing initial intensity segmentation...
using local statistics to label ambiguous voxels...
using local geometry to label remaining ambiguous voxels...

reclassifying voxels using Gaussian border classifier...

removing voxels with positive offset direction...
smoothing T1 volume with sigma = 0.250
removing 1-dimensional structures...
13105 sparsely connected voxels removed...
thickening thin strands....
20 segments, 3620 filled
4312 bright non-wm voxels segmented.
5939 diagonally connected voxels added...
white matter segmentation took 2.8 minutes
writing output to wm.seg.mgz...
assuming input volume is MGH (Van der Kouwe) MP-RAGE

 mri_edit_wm_with_aseg -keep-in wm.seg.mgz brain.mgz aseg.presurf.mgz wm.asegedit.mgz

preserving editing changes in input volume...
auto filling took 0.94 minutes
reading wm segmentation from wm.seg.mgz...
180 voxels added to wm to prevent paths from MTL structures to cortex
4534 additional wm voxels added
0 additional wm voxels added
SEG EDIT: 62698 voxels turned on, 55658 voxels turned off.
propagating editing to output volume from wm.seg.mgz
115,126,128 old 0   new 0
115,126,128 old 0   new 0
writing edited volume to wm.asegedit.mgz....

 mri_pretess -keep wm.asegedit.mgz wm norm.mgz wm.mgz


Iteration Number : 1
pass   1 (xy+):  47 found -  47 modified     |    TOTAL:  47
pass   2 (xy+):   0 found -  47 modified     |    TOTAL:  47
pass   1 (xy-):  44 found -  44 modified     |    TOTAL:  91
pass   2 (xy-):   0 found -  44 modified     |    TOTAL:  91
pass   1 (yz+):  43 found -  43 modified     |    TOTAL: 134
pass   2 (yz+):   0 found -  43 modified     |    TOTAL: 134
pass   1 (yz-):  48 found -  48 modified     |    TOTAL: 182
pass   2 (yz-):   0 found -  48 modified     |    TOTAL: 182
pass   1 (xz+):  36 found -  36 modified     |    TOTAL: 218
pass   2 (xz+):   0 found -  36 modified     |    TOTAL: 218
pass   1 (xz-):  27 found -  27 modified     |    TOTAL: 245
pass   2 (xz-):   0 found -  27 modified     |    TOTAL: 245
Iteration Number : 1
pass   1 (+++):  46 found -  46 modified     |    TOTAL:  46
pass   2 (+++):   0 found -  46 modified     |    TOTAL:  46
pass   1 (+++):  53 found -  53 modified     |    TOTAL:  99
pass   2 (+++):   0 found -  53 modified     |    TOTAL:  99
pass   1 (+++):  53 found -  53 modified     |    TOTAL: 152
pass   2 (+++):   0 found -  53 modified     |    TOTAL: 152
pass   1 (+++):  48 found -  48 modified     |    TOTAL: 200
pass   2 (+++):   0 found -  48 modified     |    TOTAL: 200
Iteration Number : 1
pass   1 (++): 147 found - 147 modified     |    TOTAL: 147
pass   2 (++):   0 found - 147 modified     |    TOTAL: 147
pass   1 (+-): 185 found - 185 modified     |    TOTAL: 332
pass   2 (+-):   1 found - 186 modified     |    TOTAL: 333
pass   3 (+-):   0 found - 186 modified     |    TOTAL: 333
pass   1 (--): 177 found - 177 modified     |    TOTAL: 510
pass   2 (--):   0 found - 177 modified     |    TOTAL: 510
pass   1 (-+): 201 found - 201 modified     |    TOTAL: 711
pass   2 (-+):   0 found - 201 modified     |    TOTAL: 711
Iteration Number : 2
pass   1 (xy+):  15 found -  15 modified     |    TOTAL:  15
pass   2 (xy+):   0 found -  15 modified     |    TOTAL:  15
pass   1 (xy-):  15 found -  15 modified     |    TOTAL:  30
pass   2 (xy-):   0 found -  15 modified     |    TOTAL:  30
pass   1 (yz+):  12 found -  12 modified     |    TOTAL:  42
pass   2 (yz+):   0 found -  12 modified     |    TOTAL:  42
pass   1 (yz-):  13 found -  13 modified     |    TOTAL:  55
pass   2 (yz-):   0 found -  13 modified     |    TOTAL:  55
pass   1 (xz+):  15 found -  15 modified     |    TOTAL:  70
pass   2 (xz+):   0 found -  15 modified     |    TOTAL:  70
pass   1 (xz-):  22 found -  22 modified     |    TOTAL:  92
pass   2 (xz-):   0 found -  22 modified     |    TOTAL:  92
Iteration Number : 2
pass   1 (+++):   3 found -   3 modified     |    TOTAL:   3
pass   2 (+++):   0 found -   3 modified     |    TOTAL:   3
pass   1 (+++):  12 found -  12 modified     |    TOTAL:  15
pass   2 (+++):   0 found -  12 modified     |    TOTAL:  15
pass   1 (+++):   6 found -   6 modified     |    TOTAL:  21
pass   2 (+++):   0 found -   6 modified     |    TOTAL:  21
pass   1 (+++):   7 found -   7 modified     |    TOTAL:  28
pass   2 (+++):   0 found -   7 modified     |    TOTAL:  28
Iteration Number : 2
pass   1 (++):  10 found -  10 modified     |    TOTAL:  10
pass   2 (++):   0 found -  10 modified     |    TOTAL:  10
pass   1 (+-):   9 found -   9 modified     |    TOTAL:  19
pass   2 (+-):   0 found -   9 modified     |    TOTAL:  19
pass   1 (--):   5 found -   5 modified     |    TOTAL:  24
pass   2 (--):   0 found -   5 modified     |    TOTAL:  24
pass   1 (-+):   9 found -   9 modified     |    TOTAL:  33
pass   2 (-+):   0 found -   9 modified     |    TOTAL:  33
Iteration Number : 3
pass   1 (xy+):   2 found -   2 modified     |    TOTAL:   2
pass   2 (xy+):   0 found -   2 modified     |    TOTAL:   2
pass   1 (xy-):   0 found -   0 modified     |    TOTAL:   2
pass   1 (yz+):   4 found -   4 modified     |    TOTAL:   6
pass   2 (yz+):   0 found -   4 modified     |    TOTAL:   6
pass   1 (yz-):   1 found -   1 modified     |    TOTAL:   7
pass   2 (yz-):   0 found -   1 modified     |    TOTAL:   7
pass   1 (xz+):   3 found -   3 modified     |    TOTAL:  10
pass   2 (xz+):   0 found -   3 modified     |    TOTAL:  10
pass   1 (xz-):   0 found -   0 modified     |    TOTAL:  10
Iteration Number : 3
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   2 found -   2 modified     |    TOTAL:   2
pass   2 (+++):   0 found -   2 modified     |    TOTAL:   2
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   2
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   2
Iteration Number : 3
pass   1 (++):   1 found -   1 modified     |    TOTAL:   1
pass   2 (++):   0 found -   1 modified     |    TOTAL:   1
pass   1 (+-):   0 found -   0 modified     |    TOTAL:   1
pass   1 (--):   1 found -   1 modified     |    TOTAL:   2
pass   2 (--):   0 found -   1 modified     |    TOTAL:   2
pass   1 (-+):   3 found -   3 modified     |    TOTAL:   5
pass   2 (-+):   0 found -   3 modified     |    TOTAL:   5
Iteration Number : 4
pass   1 (xy+):   0 found -   0 modified     |    TOTAL:   0
pass   1 (xy-):   0 found -   0 modified     |    TOTAL:   0
pass   1 (yz+):   0 found -   0 modified     |    TOTAL:   0
pass   1 (yz-):   0 found -   0 modified     |    TOTAL:   0
pass   1 (xz+):   0 found -   0 modified     |    TOTAL:   0
pass   1 (xz-):   0 found -   0 modified     |    TOTAL:   0
Iteration Number : 4
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
Iteration Number : 4
pass   1 (++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+-):   0 found -   0 modified     |    TOTAL:   0
pass   1 (--):   0 found -   0 modified     |    TOTAL:   0
pass   1 (-+):   0 found -   0 modified     |    TOTAL:   0

Total Number of Modified Voxels = 1326 (out of 557395: 0.237892)
keeping edits
binarizing input wm segmentation...
Ambiguous edge configurations...

Searching for edits to keep ...
  kept 0 WM ON voxels
  kept 0 WM OFF voxels

mri_pretess done

#--------------------------------------------
#@# Fill Fri Jan 10 10:55:08 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/mri

 mri_fill -a ../scripts/ponscc.cut.log -xform transforms/talairach.lta -segmentation aseg.auto_noCCseg.mgz wm.mgz filled.mgz

logging cutting plane coordinates to ../scripts/ponscc.cut.log...
INFO: Using transforms/talairach.lta and its offset for Talairach volume ...
using segmentation aseg.auto_noCCseg.mgz...
reading input volume...done.
searching for cutting planes...voxel to talairach voxel transform
 1.10483   0.11430  -0.01831  -28.09366;
-0.10253   1.09980   0.22423  -31.51505;
 0.00209  -0.17518   0.93346   14.73921;
 0.00000   0.00000   0.00000   1.00000;
voxel to talairach voxel transform
 1.10483   0.11430  -0.01831  -28.09366;
-0.10253   1.09980   0.22423  -31.51505;
 0.00209  -0.17518   0.93346   14.73921;
 0.00000   0.00000   0.00000   1.00000;
reading segmented volume aseg.auto_noCCseg.mgz...
Looking for area (min, max) = (350, 1400)
area[0] = 2738 (min = 350, max = 1400), aspect = 1.33 (min = 0.10, max = 0.75)
need search nearby
using seed (125, 111, 89), TAL = (3.0, -39.0, 17.0)
talairach voxel to voxel transform
 0.89696  -0.08709   0.03851   21.88677;
 0.08093   0.86789  -0.20689   32.67467;
 0.01318   0.16307   1.03237  -9.70692;
 0.00000   0.00000   0.00000   1.00000;
segmentation indicates cc at (125,  111,  89) --> (3.0, -39.0, 17.0)
done.
writing output to filled.mgz...
filling took 0.9 minutes
talairach cc position changed to (3.00, -39.00, 17.00)
Erasing brainstem...done.
seed_search_size = 9, min_neighbors = 5
search rh wm seed point around talairach space:(21.00, -39.00, 17.00) SRC: (111.62, 119.26, 101.69)
search lh wm seed point around talairach space (-15.00, -39.00, 17.00), SRC: (143.91, 122.17, 102.16)
compute mri_fill using aseg
Erasing Brain Stem and Cerebellum ...
Define left and right masks using aseg:
Building Voronoi diagram ...
Using the Voronoi diagram to separate WM into two hemispheres ...
Find the largest connected component for each hemisphere ...
#--------------------------------------------
#@# Tessellate lh Fri Jan 10 10:56:06 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mri_pretess ../mri/filled.mgz 255 ../mri/norm.mgz ../mri/filled-pretess255.mgz


Iteration Number : 1
pass   1 (xy+):   4 found -   4 modified     |    TOTAL:   4
pass   2 (xy+):   0 found -   4 modified     |    TOTAL:   4
pass   1 (xy-):   2 found -   2 modified     |    TOTAL:   6
pass   2 (xy-):   0 found -   2 modified     |    TOTAL:   6
pass   1 (yz+):   1 found -   1 modified     |    TOTAL:   7
pass   2 (yz+):   0 found -   1 modified     |    TOTAL:   7
pass   1 (yz-):   2 found -   2 modified     |    TOTAL:   9
pass   2 (yz-):   0 found -   2 modified     |    TOTAL:   9
pass   1 (xz+):   5 found -   5 modified     |    TOTAL:  14
pass   2 (xz+):   0 found -   5 modified     |    TOTAL:  14
pass   1 (xz-):   0 found -   0 modified     |    TOTAL:  14
Iteration Number : 1
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   2 found -   2 modified     |    TOTAL:   2
pass   2 (+++):   0 found -   2 modified     |    TOTAL:   2
Iteration Number : 1
pass   1 (++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+-):   3 found -   3 modified     |    TOTAL:   3
pass   2 (+-):   0 found -   3 modified     |    TOTAL:   3
pass   1 (--):   3 found -   3 modified     |    TOTAL:   6
pass   2 (--):   0 found -   3 modified     |    TOTAL:   6
pass   1 (-+):   0 found -   0 modified     |    TOTAL:   6
Iteration Number : 2
pass   1 (xy+):   0 found -   0 modified     |    TOTAL:   0
pass   1 (xy-):   2 found -   2 modified     |    TOTAL:   2
pass   2 (xy-):   0 found -   2 modified     |    TOTAL:   2
pass   1 (yz+):   0 found -   0 modified     |    TOTAL:   2
pass   1 (yz-):   0 found -   0 modified     |    TOTAL:   2
pass   1 (xz+):   0 found -   0 modified     |    TOTAL:   2
pass   1 (xz-):   0 found -   0 modified     |    TOTAL:   2
Iteration Number : 2
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
Iteration Number : 2
pass   1 (++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+-):   0 found -   0 modified     |    TOTAL:   0
pass   1 (--):   0 found -   0 modified     |    TOTAL:   0
pass   1 (-+):   0 found -   0 modified     |    TOTAL:   0
Iteration Number : 3
pass   1 (xy+):   0 found -   0 modified     |    TOTAL:   0
pass   1 (xy-):   0 found -   0 modified     |    TOTAL:   0
pass   1 (yz+):   0 found -   0 modified     |    TOTAL:   0
pass   1 (yz-):   0 found -   0 modified     |    TOTAL:   0
pass   1 (xz+):   0 found -   0 modified     |    TOTAL:   0
pass   1 (xz-):   0 found -   0 modified     |    TOTAL:   0
Iteration Number : 3
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
Iteration Number : 3
pass   1 (++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+-):   0 found -   0 modified     |    TOTAL:   0
pass   1 (--):   0 found -   0 modified     |    TOTAL:   0
pass   1 (-+):   0 found -   0 modified     |    TOTAL:   0

Total Number of Modified Voxels = 24 (out of 254885: 0.009416)
Ambiguous edge configurations...

mri_pretess done


 mri_tessellate ../mri/filled-pretess255.mgz 255 ../surf/lh.orig.nofix

$Id: mri_tessellate.c,v 1.38.2.1 2016/07/26 18:46:38 zkaufman Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
slice 40: 554 vertices, 652 faces
slice 50: 7010 vertices, 7287 faces
slice 60: 15028 vertices, 15397 faces
slice 70: 24704 vertices, 25135 faces
slice 80: 35819 vertices, 36269 faces
slice 90: 46822 vertices, 47279 faces
slice 100: 58350 vertices, 58843 faces
slice 110: 70693 vertices, 71205 faces
slice 120: 82047 vertices, 82503 faces
slice 130: 92657 vertices, 93169 faces
slice 140: 104721 vertices, 105305 faces
slice 150: 117091 vertices, 117585 faces
slice 160: 126816 vertices, 127321 faces
slice 170: 135452 vertices, 135946 faces
slice 180: 143397 vertices, 143871 faces
slice 190: 149440 vertices, 149849 faces
slice 200: 154292 vertices, 154648 faces
slice 210: 155134 vertices, 155360 faces
slice 220: 155134 vertices, 155360 faces
slice 230: 155134 vertices, 155360 faces
slice 240: 155134 vertices, 155360 faces
slice 250: 155134 vertices, 155360 faces
using the conformed surface RAS to save vertex points...
writing ../surf/lh.orig.nofix
using vox2ras matrix:
-1.00000   0.00000   0.00000   128.00000;
 0.00000   0.00000   1.00000  -128.00000;
 0.00000  -1.00000   0.00000   128.00000;
 0.00000   0.00000   0.00000   1.00000;

 rm -f ../mri/filled-pretess255.mgz


 mris_extract_main_component ../surf/lh.orig.nofix ../surf/lh.orig.nofix


counting number of connected components...
   155134 voxel in cpt #1: X=-226 [v=155134,e=466080,f=310720] located at (-27.071726, -12.011616, 5.773454)
For the whole surface: X=-226 [v=155134,e=466080,f=310720]
One single component has been found
nothing to do
done

#--------------------------------------------
#@# Tessellate rh Fri Jan 10 10:56:22 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mri_pretess ../mri/filled.mgz 127 ../mri/norm.mgz ../mri/filled-pretess127.mgz


Iteration Number : 1
pass   1 (xy+):   2 found -   2 modified     |    TOTAL:   2
pass   2 (xy+):   0 found -   2 modified     |    TOTAL:   2
pass   1 (xy-):   0 found -   0 modified     |    TOTAL:   2
pass   1 (yz+):   0 found -   0 modified     |    TOTAL:   2
pass   1 (yz-):   0 found -   0 modified     |    TOTAL:   2
pass   1 (xz+):   1 found -   1 modified     |    TOTAL:   3
pass   2 (xz+):   0 found -   1 modified     |    TOTAL:   3
pass   1 (xz-):   0 found -   0 modified     |    TOTAL:   3
Iteration Number : 1
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
Iteration Number : 1
pass   1 (++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+-):   0 found -   0 modified     |    TOTAL:   0
pass   1 (--):   0 found -   0 modified     |    TOTAL:   0
pass   1 (-+):   0 found -   0 modified     |    TOTAL:   0
Iteration Number : 2
pass   1 (xy+):   0 found -   0 modified     |    TOTAL:   0
pass   1 (xy-):   0 found -   0 modified     |    TOTAL:   0
pass   1 (yz+):   0 found -   0 modified     |    TOTAL:   0
pass   1 (yz-):   0 found -   0 modified     |    TOTAL:   0
pass   1 (xz+):   0 found -   0 modified     |    TOTAL:   0
pass   1 (xz-):   0 found -   0 modified     |    TOTAL:   0
Iteration Number : 2
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
Iteration Number : 2
pass   1 (++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+-):   0 found -   0 modified     |    TOTAL:   0
pass   1 (--):   0 found -   0 modified     |    TOTAL:   0
pass   1 (-+):   0 found -   0 modified     |    TOTAL:   0

Total Number of Modified Voxels = 3 (out of 280359: 0.001070)
Ambiguous edge configurations...

mri_pretess done


 mri_tessellate ../mri/filled-pretess127.mgz 127 ../surf/rh.orig.nofix

$Id: mri_tessellate.c,v 1.38.2.1 2016/07/26 18:46:38 zkaufman Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
slice 40: 74 vertices, 98 faces
slice 50: 4024 vertices, 4259 faces
slice 60: 11473 vertices, 11768 faces
slice 70: 21344 vertices, 21779 faces
slice 80: 32454 vertices, 32873 faces
slice 90: 43026 vertices, 43411 faces
slice 100: 54408 vertices, 54854 faces
slice 110: 66542 vertices, 67058 faces
slice 120: 79183 vertices, 79695 faces
slice 130: 91332 vertices, 91847 faces
slice 140: 103389 vertices, 103937 faces
slice 150: 115079 vertices, 115615 faces
slice 160: 125799 vertices, 126354 faces
slice 170: 134647 vertices, 135122 faces
slice 180: 142863 vertices, 143324 faces
slice 190: 149639 vertices, 150102 faces
slice 200: 155269 vertices, 155689 faces
slice 210: 158206 vertices, 158509 faces
slice 220: 158488 vertices, 158740 faces
slice 230: 158488 vertices, 158740 faces
slice 240: 158488 vertices, 158740 faces
slice 250: 158488 vertices, 158740 faces
using the conformed surface RAS to save vertex points...
writing ../surf/rh.orig.nofix
using vox2ras matrix:
-1.00000   0.00000   0.00000   128.00000;
 0.00000   0.00000   1.00000  -128.00000;
 0.00000  -1.00000   0.00000   128.00000;
 0.00000   0.00000   0.00000   1.00000;

 rm -f ../mri/filled-pretess127.mgz


 mris_extract_main_component ../surf/rh.orig.nofix ../surf/rh.orig.nofix


counting number of connected components...
   158488 voxel in cpt #1: X=-252 [v=158488,e=476220,f=317480] located at (26.028368, -7.933781, 10.690210)
For the whole surface: X=-252 [v=158488,e=476220,f=317480]
One single component has been found
nothing to do
done

#--------------------------------------------
#@# Smooth1 lh Fri Jan 10 10:56:36 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_smooth -nw -seed 1234 ../surf/lh.orig.nofix ../surf/lh.smoothwm.nofix

setting seed for random number generator to 1234
smoothing surface tessellation for 10 iterations...
smoothing complete - recomputing first and second fundamental forms...
#--------------------------------------------
#@# Smooth1 rh Fri Jan 10 10:56:47 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_smooth -nw -seed 1234 ../surf/rh.orig.nofix ../surf/rh.smoothwm.nofix

setting seed for random number generator to 1234
smoothing surface tessellation for 10 iterations...
smoothing complete - recomputing first and second fundamental forms...
#--------------------------------------------
#@# Inflation1 lh Fri Jan 10 10:56:57 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_inflate -no-save-sulc ../surf/lh.smoothwm.nofix ../surf/lh.inflated.nofix

Not saving sulc
Reading ../surf/lh.smoothwm.nofix
avg radius = 48.8 mm, total surface area = 80601 mm^2
writing inflated surface to ../surf/lh.inflated.nofix
inflation took 1.0 minutes

step 000: RMS=0.168 (target=0.015)
step 005: RMS=0.130 (target=0.015)   ep 010: RMS=0.105 (target=0.015)   
st015: RMS=0.093 (target=0.015)   
step : RMS=0.085 (target=0.015)   
step 025MS=0.080 (target=0.015)   
step 030: R0.075 (target=0.015)   
step 035: RMS=70 (target=0.015)   
step 040: RMS=0.0(target=0.015)   
step 045: RMS=0.065 rget=0.015)   
step 050: RMS=0.063 (tat=0.015)   
step 055: RMS=0.064 (targe.015)   
step 060: RMS=0.064 (target=05)   
inflation complete.
Not saving sulc
mris_inflate utimesec    58.591572
mris_inflate stimesec    0.451850
mris_inflate ru_maxrss   199020
mris_inflate ru_ixrss    0
mris_inflate ru_idrss    0
mris_inflate ru_isrss    0
mris_inflate ru_minflt   300497
mris_inflate ru_majflt   0
mris_inflate ru_nswap    0
mris_inflate ru_inblock  0
mris_inflate ru_oublock  10928
mris_inflate ru_msgsnd   0
mris_inflate ru_msgrcv   0
mris_inflate ru_nsignals 0
mris_inflate ru_nvcsw    230
mris_inflate ru_nivcsw   1794
#--------------------------------------------
#@# Inflation1 rh Fri Jan 10 10:57:56 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_inflate -no-save-sulc ../surf/rh.smoothwm.nofix ../surf/rh.inflated.nofix

Not saving sulc
Reading ../surf/rh.smoothwm.nofix
avg radius = 49.1 mm, total surface area = 82530 mm^2
writing inflated surface to ../surf/rh.inflated.nofix
inflation took 1.0 minutes

step 000: RMS=0.168 (target=0.015)
step 005: RMS=0.131 (target=0.015)   ep 010: RMS=0.105 (target=0.015)   
st015: RMS=0.094 (target=0.015)   
step : RMS=0.086 (target=0.015)   
step 025MS=0.079 (target=0.015)   
step 030: R0.074 (target=0.015)   
step 035: RMS=70 (target=0.015)   
step 040: RMS=0.0(target=0.015)   
step 045: RMS=0.064 rget=0.015)   
step 050: RMS=0.063 (tat=0.015)   
step 055: RMS=0.062 (targe.015)   
step 060: RMS=0.062 (target=05)   
inflation complete.
Not saving sulc
mris_inflate utimesec    58.315186
mris_inflate stimesec    0.650723
mris_inflate ru_maxrss   203352
mris_inflate ru_ixrss    0
mris_inflate ru_idrss    0
mris_inflate ru_isrss    0
mris_inflate ru_minflt   357267
mris_inflate ru_majflt   0
mris_inflate ru_nswap    0
mris_inflate ru_inblock  0
mris_inflate ru_oublock  11160
mris_inflate ru_msgsnd   0
mris_inflate ru_msgrcv   0
mris_inflate ru_nsignals 0
mris_inflate ru_nvcsw    176
mris_inflate ru_nivcsw   1930
#--------------------------------------------
#@# QSphere lh Fri Jan 10 10:58:55 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_sphere -q -seed 1234 ../surf/lh.inflated.nofix ../surf/lh.qsphere.nofix

doing quick spherical unfolding.
setting seed for random number genererator to 1234
$Id: mris_sphere.c,v 1.61 2016/01/20 23:42:15 greve Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading original vertex positions...
unfolding cortex into spherical form...
surface projected - minimizing metric distortion...
vertex spacing 0.90 +- 0.61 (0.00-->7.17) (max @ vno 60499 --> 61860)
face area 0.02 +- 0.03 (-0.20-->0.70)

== Number of threads available to mris_sphere for OpenMP = 1 ==
scaling brain by 0.292...
inflating to sphere (rms error < 2.00)
000: dt: 0.0000, rms radial error=176.599, avgs=0
005/300: dt: 0.9000, rms radial error=176.347, avgs=0
010/300: dt: 0.9000, rms radial error=175.805, avgs=0
015/300: dt: 0.9000, rms radial error=175.092, avgs=0
020/300: dt: 0.9000, rms radial error=174.274, avgs=0
025/300: dt: 0.9000, rms radial error=173.390, avgs=0
030/300: dt: 0.9000, rms radial error=172.475, avgs=0
035/300: dt: 0.9000, rms radial error=171.543, avgs=0
040/300: dt: 0.9000, rms radial error=170.603, avgs=0
045/300: dt: 0.9000, rms radial error=169.661, avgs=0
050/300: dt: 0.9000, rms radial error=168.719, avgs=0
055/300: dt: 0.9000, rms radial error=167.780, avgs=0
060/300: dt: 0.9000, rms radial error=166.844, avgs=0
065/300: dt: 0.9000, rms radial error=165.912, avgs=0
070/300: dt: 0.9000, rms radial error=164.984, avgs=0
075/300: dt: 0.9000, rms radial error=164.061, avgs=0
080/300: dt: 0.9000, rms radial error=163.144, avgs=0
085/300: dt: 0.9000, rms radial error=162.232, avgs=0
090/300: dt: 0.9000, rms radial error=161.325, avgs=0
095/300: dt: 0.9000, rms radial error=160.422, avgs=0
100/300: dt: 0.9000, rms radial error=159.524, avgs=0
105/300: dt: 0.9000, rms radial error=158.630, avgs=0
110/300: dt: 0.9000, rms radial error=157.741, avgs=0
115/300: dt: 0.9000, rms radial error=156.857, avgs=0
120/300: dt: 0.9000, rms radial error=155.977, avgs=0
125/300: dt: 0.9000, rms radial error=155.101, avgs=0
130/300: dt: 0.9000, rms radial error=154.230, avgs=0
135/300: dt: 0.9000, rms radial error=153.363, avgs=0
140/300: dt: 0.9000, rms radial error=152.502, avgs=0
145/300: dt: 0.9000, rms radial error=151.645, avgs=0
150/300: dt: 0.9000, rms radial error=150.792, avgs=0
155/300: dt: 0.9000, rms radial error=149.944, avgs=0
160/300: dt: 0.9000, rms radial error=149.101, avgs=0
165/300: dt: 0.9000, rms radial error=148.262, avgs=0
170/300: dt: 0.9000, rms radial error=147.427, avgs=0
175/300: dt: 0.9000, rms radial error=146.597, avgs=0
180/300: dt: 0.9000, rms radial error=145.772, avgs=0
185/300: dt: 0.9000, rms radial error=144.951, avgs=0
190/300: dt: 0.9000, rms radial error=144.135, avgs=0
195/300: dt: 0.9000, rms radial error=143.323, avgs=0
200/300: dt: 0.9000, rms radial error=142.515, avgs=0
205/300: dt: 0.9000, rms radial error=141.712, avgs=0
210/300: dt: 0.9000, rms radial error=140.913, avgs=0
215/300: dt: 0.9000, rms radial error=140.119, avgs=0
220/300: dt: 0.9000, rms radial error=139.329, avgs=0
225/300: dt: 0.9000, rms radial error=138.544, avgs=0
230/300: dt: 0.9000, rms radial error=137.762, avgs=0
235/300: dt: 0.9000, rms radial error=136.985, avgs=0
240/300: dt: 0.9000, rms radial error=136.213, avgs=0
245/300: dt: 0.9000, rms radial error=135.445, avgs=0
250/300: dt: 0.9000, rms radial error=134.684, avgs=0
255/300: dt: 0.9000, rms radial error=133.921, avgs=0
260/300: dt: 0.9000, rms radial error=133.165, avgs=0
265/300: dt: 0.9000, rms radial error=132.414, avgs=0
270/300: dt: 0.9000, rms radial error=131.666, avgs=0
275/300: dt: 0.9000, rms radial error=130.924, avgs=0
280/300: dt: 0.9000, rms radial error=130.185, avgs=0
285/300: dt: 0.9000, rms radial error=129.449, avgs=0
290/300: dt: 0.9000, rms radial error=128.718, avgs=0
295/300: dt: 0.9000, rms radial error=127.992, avgs=0
300/300: dt: 0.9000, rms radial error=127.269, avgs=0

spherical inflation complete.
epoch 1 (K=10.0), pass 1, starting sse = 18662.31
taking momentum steps...
taking momentum steps...
taking momentum steps...
pass 1 complete, delta sse/iter = 0.00/10 = 0.00010
epoch 2 (K=40.0), pass 1, starting sse = 3387.44
taking momentum steps...
taking momentum steps...
taking momentum steps...
pass 1 complete, delta sse/iter = 0.00/10 = 0.00002
epoch 3 (K=160.0), pass 1, starting sse = 449.82
taking momentum steps...
taking momentum steps...
taking momentum steps...
pass 1 complete, delta sse/iter = 0.03/10 = 0.00334
epoch 4 (K=640.0), pass 1, starting sse = 57.36
taking momentum steps...
taking momentum steps...
taking momentum steps...
pass 1 complete, delta sse/iter = 0.06/10 = 0.00612
final distance error %31.78
writing spherical brain to ../surf/lh.qsphere.nofix
spherical transformation took 0.09 hours
mris_sphere utimesec    330.674245
mris_sphere stimesec    1.434402
mris_sphere ru_maxrss   199208
mris_sphere ru_ixrss    0
mris_sphere ru_idrss    0
mris_sphere ru_isrss    0
mris_sphere ru_minflt   927783
mris_sphere ru_majflt   0
mris_sphere ru_nswap    0
mris_sphere ru_inblock  0
mris_sphere ru_oublock  10928
mris_sphere ru_msgsnd   0
mris_sphere ru_msgrcv   0
mris_sphere ru_nsignals 0
mris_sphere ru_nvcsw    170
mris_sphere ru_nivcsw   16665
FSRUNTIME@ mris_sphere  0.0923 hours 1 threads
#--------------------------------------------
#@# QSphere rh Fri Jan 10 11:04:27 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_sphere -q -seed 1234 ../surf/rh.inflated.nofix ../surf/rh.qsphere.nofix

doing quick spherical unfolding.
setting seed for random number genererator to 1234
$Id: mris_sphere.c,v 1.61 2016/01/20 23:42:15 greve Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading original vertex positions...
unfolding cortex into spherical form...
surface projected - minimizing metric distortion...
vertex spacing 0.90 +- 0.58 (0.00-->6.35) (max @ vno 70154 --> 70179)
face area 0.02 +- 0.03 (-0.21-->0.56)

== Number of threads available to mris_sphere for OpenMP = 1 ==
scaling brain by 0.280...
inflating to sphere (rms error < 2.00)
000: dt: 0.0000, rms radial error=177.174, avgs=0
005/300: dt: 0.9000, rms radial error=176.917, avgs=0
010/300: dt: 0.9000, rms radial error=176.364, avgs=0
015/300: dt: 0.9000, rms radial error=175.634, avgs=0
020/300: dt: 0.9000, rms radial error=174.800, avgs=0
025/300: dt: 0.9000, rms radial error=173.906, avgs=0
030/300: dt: 0.9000, rms radial error=172.978, avgs=0
035/300: dt: 0.9000, rms radial error=172.033, avgs=0
040/300: dt: 0.9000, rms radial error=171.079, avgs=0
045/300: dt: 0.9000, rms radial error=170.123, avgs=0
050/300: dt: 0.9000, rms radial error=169.174, avgs=0
055/300: dt: 0.9000, rms radial error=168.228, avgs=0
060/300: dt: 0.9000, rms radial error=167.285, avgs=0
065/300: dt: 0.9000, rms radial error=166.346, avgs=0
070/300: dt: 0.9000, rms radial error=165.411, avgs=0
075/300: dt: 0.9000, rms radial error=164.481, avgs=0
080/300: dt: 0.9000, rms radial error=163.556, avgs=0
085/300: dt: 0.9000, rms radial error=162.636, avgs=0
090/300: dt: 0.9000, rms radial error=161.721, avgs=0
095/300: dt: 0.9000, rms radial error=160.810, avgs=0
100/300: dt: 0.9000, rms radial error=159.905, avgs=0
105/300: dt: 0.9000, rms radial error=159.005, avgs=0
110/300: dt: 0.9000, rms radial error=158.110, avgs=0
115/300: dt: 0.9000, rms radial error=157.220, avgs=0
120/300: dt: 0.9000, rms radial error=156.335, avgs=0
125/300: dt: 0.9000, rms radial error=155.455, avgs=0
130/300: dt: 0.9000, rms radial error=154.579, avgs=0
135/300: dt: 0.9000, rms radial error=153.709, avgs=0
140/300: dt: 0.9000, rms radial error=152.844, avgs=0
145/300: dt: 0.9000, rms radial error=151.984, avgs=0
150/300: dt: 0.9000, rms radial error=151.129, avgs=0
155/300: dt: 0.9000, rms radial error=150.278, avgs=0
160/300: dt: 0.9000, rms radial error=149.432, avgs=0
165/300: dt: 0.9000, rms radial error=148.591, avgs=0
170/300: dt: 0.9000, rms radial error=147.754, avgs=0
175/300: dt: 0.9000, rms radial error=146.922, avgs=0
180/300: dt: 0.9000, rms radial error=146.094, avgs=0
185/300: dt: 0.9000, rms radial error=145.271, avgs=0
190/300: dt: 0.9000, rms radial error=144.452, avgs=0
195/300: dt: 0.9000, rms radial error=143.638, avgs=0
200/300: dt: 0.9000, rms radial error=142.829, avgs=0
205/300: dt: 0.9000, rms radial error=142.024, avgs=0
210/300: dt: 0.9000, rms radial error=141.223, avgs=0
215/300: dt: 0.9000, rms radial error=140.427, avgs=0
220/300: dt: 0.9000, rms radial error=139.635, avgs=0
225/300: dt: 0.9000, rms radial error=138.848, avgs=0
230/300: dt: 0.9000, rms radial error=138.066, avgs=0
235/300: dt: 0.9000, rms radial error=137.287, avgs=0
240/300: dt: 0.9000, rms radial error=136.513, avgs=0
245/300: dt: 0.9000, rms radial error=135.744, avgs=0
250/300: dt: 0.9000, rms radial error=134.978, avgs=0
255/300: dt: 0.9000, rms radial error=134.217, avgs=0
260/300: dt: 0.9000, rms radial error=133.460, avgs=0
265/300: dt: 0.9000, rms radial error=132.707, avgs=0
270/300: dt: 0.9000, rms radial error=131.959, avgs=0
275/300: dt: 0.9000, rms radial error=131.215, avgs=0
280/300: dt: 0.9000, rms radial error=130.474, avgs=0
285/300: dt: 0.9000, rms radial error=129.738, avgs=0
290/300: dt: 0.9000, rms radial error=129.006, avgs=0
295/300: dt: 0.9000, rms radial error=128.278, avgs=0
300/300: dt: 0.9000, rms radial error=127.554, avgs=0

spherical inflation complete.
epoch 1 (K=10.0), pass 1, starting sse = 19206.79
taking momentum steps...
taking momentum steps...
taking momentum steps...
pass 1 complete, delta sse/iter = 0.00/10 = 0.00012
epoch 2 (K=40.0), pass 1, starting sse = 3472.37
taking momentum steps...
taking momentum steps...
taking momentum steps...
pass 1 complete, delta sse/iter = 0.00/10 = 0.00001
epoch 3 (K=160.0), pass 1, starting sse = 438.53
taking momentum steps...
taking momentum steps...
taking momentum steps...
pass 1 complete, delta sse/iter = 0.06/11 = 0.00583
epoch 4 (K=640.0), pass 1, starting sse = 42.87
taking momentum steps...
taking momentum steps...
taking momentum steps...
pass 1 complete, delta sse/iter = 0.12/14 = 0.00824
final distance error %28.60
writing spherical brain to ../surf/rh.qsphere.nofix
spherical transformation took 0.09 hours
mris_sphere utimesec    327.656761
mris_sphere stimesec    0.965784
mris_sphere ru_maxrss   203552
mris_sphere ru_ixrss    0
mris_sphere ru_idrss    0
mris_sphere ru_isrss    0
mris_sphere ru_minflt   606096
mris_sphere ru_majflt   0
mris_sphere ru_nswap    0
mris_sphere ru_inblock  0
mris_sphere ru_oublock  11160
mris_sphere ru_msgsnd   0
mris_sphere ru_msgrcv   0
mris_sphere ru_nsignals 0
mris_sphere ru_nvcsw    150
mris_sphere ru_nivcsw   10071
FSRUNTIME@ mris_sphere  0.0913 hours 1 threads
#--------------------------------------------
#@# Fix Topology Copy lh Fri Jan 10 11:09:56 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 cp ../surf/lh.orig.nofix ../surf/lh.orig


 cp ../surf/lh.inflated.nofix ../surf/lh.inflated

#--------------------------------------------
#@# Fix Topology Copy rh Fri Jan 10 11:09:56 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 cp ../surf/rh.orig.nofix ../surf/rh.orig


 cp ../surf/rh.inflated.nofix ../surf/rh.inflated

#@# Fix Topology lh Fri Jan 10 11:09:56 CST 2020

 mris_fix_topology -rusage /study2/emowrap/data/freesurfer/subjects/066/touch/rusage.mris_fix_topology.lh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 066 lh

reading spherical homeomorphism from 'qsphere.nofix'
using genetic algorithm with optimized parameters
setting seed for random number genererator to 1234

*************************************************************
Topology Correction Parameters
retessellation mode:           genetic search
number of patches/generation : 10
number of generations :        10
surface mri loglikelihood coefficient :         1.0
volume mri loglikelihood coefficient :          10.0
normal dot loglikelihood coefficient :          1.0
quadratic curvature loglikelihood coefficient : 1.0
volume resolution :                             2
eliminate vertices during search :              1
initial patch selection :                       1
select all defect vertices :                    0
ordering dependant retessellation:              0
use precomputed edge table :                    0
smooth retessellated patch :                    2
match retessellated patch :                     1
verbose mode :                                  0

*************************************************************
INFO: assuming .mgz format
$Id: mris_fix_topology.c,v 1.50.2.1 2016/10/27 22:25:58 zkaufman Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
before topology correction, eno=-226 (nv=155134, nf=310720, ne=466080, g=114)
using quasi-homeomorphic spherical map to tessellate cortical surface...

Correction of the Topology
Finding true center and radius of Spherical Surface...done
Surface centered at (0,0,0) with radius 100.0 in 12 iterations
marking ambiguous vertices...
25703 ambiguous faces found in tessellation
segmenting defects...
116 defects found, arbitrating ambiguous regions...
analyzing neighboring defects...
      -merging segment 5 into 0
      -merging segment 7 into 3
      -merging segment 36 into 35
      -merging segment 42 into 41
      -merging segment 76 into 73
      -merging segment 103 into 100
      -merging segment 112 into 113
109 defects to be corrected
0 vertices coincident
reading input surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.qsphere.nofix...
reading brain volume from brain...
reading wm segmentation from wm...
Computing Initial Surface Statistics
      -face       loglikelihood: -9.6333  (-4.8167)
      -vertex     loglikelihood: -6.7954  (-3.3977)
      -normal dot loglikelihood: -3.5610  (-3.5610)
      -quad curv  loglikelihood: -6.4886  (-3.2443)
      Total Loglikelihood : -26.4783

CORRECTING DEFECT 0 (vertices=2194, convex hull=679, v0=14)
XL defect detected...
After retessellation of defect 0 (v0=14), euler #=-103 (140993,419900,278804) : difference with theory (-106) = -3

CORRECTING DEFECT 1 (vertices=275, convex hull=204, v0=713)
After retessellation of defect 1 (v0=713), euler #=-102 (141051,420171,279018) : difference with theory (-105) = -3

CORRECTING DEFECT 2 (vertices=34, convex hull=46, v0=1579)
After retessellation of defect 2 (v0=1579), euler #=-101 (141060,420219,279058) : difference with theory (-104) = -3

CORRECTING DEFECT 3 (vertices=388, convex hull=208, v0=4978)
After retessellation of defect 3 (v0=4978), euler #=-100 (141154,420609,279355) : difference with theory (-103) = -3

CORRECTING DEFECT 4 (vertices=32, convex hull=62, v0=5115)
After retessellation of defect 4 (v0=5115), euler #=-99 (141165,420661,279397) : difference with theory (-102) = -3

CORRECTING DEFECT 5 (vertices=217, convex hull=68, v0=5602)
After retessellation of defect 5 (v0=5602), euler #=-98 (141185,420749,279466) : difference with theory (-101) = -3

CORRECTING DEFECT 6 (vertices=48, convex hull=87, v0=13566)
After retessellation of defect 6 (v0=13566), euler #=-97 (141210,420858,279551) : difference with theory (-100) = -3

CORRECTING DEFECT 7 (vertices=12, convex hull=31, v0=23339)
After retessellation of defect 7 (v0=23339), euler #=-96 (141212,420872,279564) : difference with theory (-99) = -3

CORRECTING DEFECT 8 (vertices=30, convex hull=34, v0=24550)
After retessellation of defect 8 (v0=24550), euler #=-95 (141217,420903,279591) : difference with theory (-98) = -3

CORRECTING DEFECT 9 (vertices=47, convex hull=87, v0=28960)
After retessellation of defect 9 (v0=28960), euler #=-94 (141245,421021,279682) : difference with theory (-97) = -3

CORRECTING DEFECT 10 (vertices=45, convex hull=60, v0=31086)
After retessellation of defect 10 (v0=31086), euler #=-93 (141261,421091,279737) : difference with theory (-96) = -3

CORRECTING DEFECT 11 (vertices=6, convex hull=15, v0=31442)
After retessellation of defect 11 (v0=31442), euler #=-92 (141261,421094,279741) : difference with theory (-95) = -3

CORRECTING DEFECT 12 (vertices=140, convex hull=116, v0=31853)
After retessellation of defect 12 (v0=31853), euler #=-91 (141321,421331,279919) : difference with theory (-94) = -3

CORRECTING DEFECT 13 (vertices=54, convex hull=43, v0=32256)
After retessellation of defect 13 (v0=32256), euler #=-90 (141332,421379,279957) : difference with theory (-93) = -3

CORRECTING DEFECT 14 (vertices=32, convex hull=50, v0=33252)
After retessellation of defect 14 (v0=33252), euler #=-89 (141340,421421,279992) : difference with theory (-92) = -3

CORRECTING DEFECT 15 (vertices=20, convex hull=45, v0=36543)
After retessellation of defect 15 (v0=36543), euler #=-88 (141349,421463,280026) : difference with theory (-91) = -3

CORRECTING DEFECT 16 (vertices=29, convex hull=24, v0=37488)
After retessellation of defect 16 (v0=37488), euler #=-87 (141351,421475,280037) : difference with theory (-90) = -3

CORRECTING DEFECT 17 (vertices=20, convex hull=27, v0=40298)
After retessellation of defect 17 (v0=40298), euler #=-86 (141353,421489,280050) : difference with theory (-89) = -3

CORRECTING DEFECT 18 (vertices=92, convex hull=45, v0=44111)
After retessellation of defect 18 (v0=44111), euler #=-85 (141365,421544,280094) : difference with theory (-88) = -3

CORRECTING DEFECT 19 (vertices=18, convex hull=57, v0=46412)
After retessellation of defect 19 (v0=46412), euler #=-84 (141373,421589,280132) : difference with theory (-87) = -3

CORRECTING DEFECT 20 (vertices=39, convex hull=52, v0=46684)
After retessellation of defect 20 (v0=46684), euler #=-83 (141382,421636,280171) : difference with theory (-86) = -3

CORRECTING DEFECT 21 (vertices=35, convex hull=71, v0=48964)
After retessellation of defect 21 (v0=48964), euler #=-82 (141405,421733,280246) : difference with theory (-85) = -3

CORRECTING DEFECT 22 (vertices=22, convex hull=21, v0=51217)
After retessellation of defect 22 (v0=51217), euler #=-81 (141409,421749,280259) : difference with theory (-84) = -3

CORRECTING DEFECT 23 (vertices=50, convex hull=94, v0=53424)
After retessellation of defect 23 (v0=53424), euler #=-80 (141418,421812,280314) : difference with theory (-83) = -3

CORRECTING DEFECT 24 (vertices=140, convex hull=80, v0=54046)
After retessellation of defect 24 (v0=54046), euler #=-80 (141443,421925,280402) : difference with theory (-82) = -2

CORRECTING DEFECT 25 (vertices=113, convex hull=88, v0=55170)
After retessellation of defect 25 (v0=55170), euler #=-79 (141474,422049,280496) : difference with theory (-81) = -2

CORRECTING DEFECT 26 (vertices=40, convex hull=39, v0=55449)
After retessellation of defect 26 (v0=55449), euler #=-78 (141476,422069,280515) : difference with theory (-80) = -2

CORRECTING DEFECT 27 (vertices=52, convex hull=32, v0=55696)
After retessellation of defect 27 (v0=55696), euler #=-77 (141488,422117,280552) : difference with theory (-79) = -2

CORRECTING DEFECT 28 (vertices=10, convex hull=29, v0=55759)
After retessellation of defect 28 (v0=55759), euler #=-76 (141489,422132,280567) : difference with theory (-78) = -2

CORRECTING DEFECT 29 (vertices=23, convex hull=63, v0=57216)
After retessellation of defect 29 (v0=57216), euler #=-75 (141499,422184,280610) : difference with theory (-77) = -2

CORRECTING DEFECT 30 (vertices=5, convex hull=12, v0=57863)
After retessellation of defect 30 (v0=57863), euler #=-74 (141499,422187,280614) : difference with theory (-76) = -2

CORRECTING DEFECT 31 (vertices=13, convex hull=29, v0=59594)
After retessellation of defect 31 (v0=59594), euler #=-73 (141500,422199,280626) : difference with theory (-75) = -2

CORRECTING DEFECT 32 (vertices=59, convex hull=47, v0=62864)
After retessellation of defect 32 (v0=62864), euler #=-74 (141525,422302,280703) : difference with theory (-74) = 0

CORRECTING DEFECT 33 (vertices=66, convex hull=77, v0=64651)
After retessellation of defect 33 (v0=64651), euler #=-72 (141533,422365,280760) : difference with theory (-73) = -1

CORRECTING DEFECT 34 (vertices=32, convex hull=70, v0=65928)
After retessellation of defect 34 (v0=65928), euler #=-71 (141546,422429,280812) : difference with theory (-72) = -1

CORRECTING DEFECT 35 (vertices=69, convex hull=43, v0=68275)
After retessellation of defect 35 (v0=68275), euler #=-70 (141554,422469,280845) : difference with theory (-71) = -1

CORRECTING DEFECT 36 (vertices=56, convex hull=33, v0=68552)
After retessellation of defect 36 (v0=68552), euler #=-69 (141557,422489,280863) : difference with theory (-70) = -1

CORRECTING DEFECT 37 (vertices=11, convex hull=20, v0=69008)
After retessellation of defect 37 (v0=69008), euler #=-68 (141563,422511,280880) : difference with theory (-69) = -1

CORRECTING DEFECT 38 (vertices=70, convex hull=104, v0=70555)
After retessellation of defect 38 (v0=70555), euler #=-66 (141597,422663,281000) : difference with theory (-68) = -2

CORRECTING DEFECT 39 (vertices=17, convex hull=27, v0=73205)
After retessellation of defect 39 (v0=73205), euler #=-65 (141598,422674,281011) : difference with theory (-67) = -2

CORRECTING DEFECT 40 (vertices=6, convex hull=24, v0=78060)
After retessellation of defect 40 (v0=78060), euler #=-64 (141600,422686,281022) : difference with theory (-66) = -2

CORRECTING DEFECT 41 (vertices=34, convex hull=56, v0=82015)
After retessellation of defect 41 (v0=82015), euler #=-63 (141609,422734,281062) : difference with theory (-65) = -2

CORRECTING DEFECT 42 (vertices=6, convex hull=27, v0=82533)
After retessellation of defect 42 (v0=82533), euler #=-62 (141612,422752,281078) : difference with theory (-64) = -2

CORRECTING DEFECT 43 (vertices=48, convex hull=85, v0=83312)
After retessellation of defect 43 (v0=83312), euler #=-61 (141638,422870,281171) : difference with theory (-63) = -2

CORRECTING DEFECT 44 (vertices=13, convex hull=46, v0=84965)
After retessellation of defect 44 (v0=84965), euler #=-60 (141647,422913,281206) : difference with theory (-62) = -2

CORRECTING DEFECT 45 (vertices=57, convex hull=55, v0=86976)
After retessellation of defect 45 (v0=86976), euler #=-59 (141656,422963,281248) : difference with theory (-61) = -2

CORRECTING DEFECT 46 (vertices=12, convex hull=14, v0=87222)
After retessellation of defect 46 (v0=87222), euler #=-58 (141657,422970,281255) : difference with theory (-60) = -2

CORRECTING DEFECT 47 (vertices=59, convex hull=75, v0=89920)
After retessellation of defect 47 (v0=89920), euler #=-57 (141693,423111,281361) : difference with theory (-59) = -2

CORRECTING DEFECT 48 (vertices=495, convex hull=287, v0=90069)
After retessellation of defect 48 (v0=90069), euler #=-56 (141837,423673,281780) : difference with theory (-58) = -2

CORRECTING DEFECT 49 (vertices=34, convex hull=67, v0=91602)
After retessellation of defect 49 (v0=91602), euler #=-55 (141846,423728,281827) : difference with theory (-57) = -2

CORRECTING DEFECT 50 (vertices=12, convex hull=17, v0=92936)
After retessellation of defect 50 (v0=92936), euler #=-54 (141846,423732,281832) : difference with theory (-56) = -2

CORRECTING DEFECT 51 (vertices=5134, convex hull=495, v0=95490)
XL defect detected...
After retessellation of defect 51 (v0=95490), euler #=-54 (143886,430118,286178) : difference with theory (-55) = -1

CORRECTING DEFECT 52 (vertices=32, convex hull=20, v0=95822)
After retessellation of defect 52 (v0=95822), euler #=-53 (143889,430137,286195) : difference with theory (-54) = -1

CORRECTING DEFECT 53 (vertices=34, convex hull=48, v0=96208)
After retessellation of defect 53 (v0=96208), euler #=-52 (143901,430191,286238) : difference with theory (-53) = -1

CORRECTING DEFECT 54 (vertices=43, convex hull=65, v0=97499)
After retessellation of defect 54 (v0=97499), euler #=-51 (143910,430248,286287) : difference with theory (-52) = -1

CORRECTING DEFECT 55 (vertices=13, convex hull=25, v0=97737)
After retessellation of defect 55 (v0=97737), euler #=-50 (143912,430263,286301) : difference with theory (-51) = -1

CORRECTING DEFECT 56 (vertices=15, convex hull=28, v0=98120)
After retessellation of defect 56 (v0=98120), euler #=-49 (143915,430279,286315) : difference with theory (-50) = -1

CORRECTING DEFECT 57 (vertices=45, convex hull=18, v0=98196)
After retessellation of defect 57 (v0=98196), euler #=-48 (143920,430298,286330) : difference with theory (-49) = -1

CORRECTING DEFECT 58 (vertices=30, convex hull=75, v0=100220)
After retessellation of defect 58 (v0=100220), euler #=-47 (143939,430382,286396) : difference with theory (-48) = -1

CORRECTING DEFECT 59 (vertices=52, convex hull=37, v0=100713)
After retessellation of defect 59 (v0=100713), euler #=-46 (143946,430413,286421) : difference with theory (-47) = -1

CORRECTING DEFECT 60 (vertices=84, convex hull=104, v0=101800)
After retessellation of defect 60 (v0=101800), euler #=-46 (143979,430560,286535) : difference with theory (-46) = 0

CORRECTING DEFECT 61 (vertices=26, convex hull=34, v0=102395)
After retessellation of defect 61 (v0=102395), euler #=-45 (143987,430596,286564) : difference with theory (-45) = 0

CORRECTING DEFECT 62 (vertices=32, convex hull=34, v0=104183)
After retessellation of defect 62 (v0=104183), euler #=-44 (143993,430624,286587) : difference with theory (-44) = 0

CORRECTING DEFECT 63 (vertices=828, convex hull=329, v0=104646)
After retessellation of defect 63 (v0=104646), euler #=-45 (144186,431386,287155) : difference with theory (-43) = 2

CORRECTING DEFECT 64 (vertices=29, convex hull=56, v0=104883)
After retessellation of defect 64 (v0=104883), euler #=-44 (144201,431451,287206) : difference with theory (-42) = 2

CORRECTING DEFECT 65 (vertices=16, convex hull=26, v0=106880)
After retessellation of defect 65 (v0=106880), euler #=-43 (144204,431467,287220) : difference with theory (-41) = 2

CORRECTING DEFECT 66 (vertices=39, convex hull=48, v0=106985)
After retessellation of defect 66 (v0=106985), euler #=-42 (144214,431513,287257) : difference with theory (-40) = 2

CORRECTING DEFECT 67 (vertices=34, convex hull=33, v0=107097)
After retessellation of defect 67 (v0=107097), euler #=-41 (144221,431547,287285) : difference with theory (-39) = 2

CORRECTING DEFECT 68 (vertices=30, convex hull=72, v0=109649)
After retessellation of defect 68 (v0=109649), euler #=-40 (144242,431638,287356) : difference with theory (-38) = 2

CORRECTING DEFECT 69 (vertices=74, convex hull=77, v0=110358)
After retessellation of defect 69 (v0=110358), euler #=-38 (144256,431716,287422) : difference with theory (-37) = 1

CORRECTING DEFECT 70 (vertices=6, convex hull=19, v0=111284)
After retessellation of defect 70 (v0=111284), euler #=-37 (144258,431728,287433) : difference with theory (-36) = 1

CORRECTING DEFECT 71 (vertices=191, convex hull=120, v0=112938)
After retessellation of defect 71 (v0=112938), euler #=-36 (144292,431895,287567) : difference with theory (-35) = 1

CORRECTING DEFECT 72 (vertices=29, convex hull=21, v0=113380)
After retessellation of defect 72 (v0=113380), euler #=-35 (144296,431911,287580) : difference with theory (-34) = 1

CORRECTING DEFECT 73 (vertices=15, convex hull=46, v0=115022)
After retessellation of defect 73 (v0=115022), euler #=-34 (144303,431949,287612) : difference with theory (-33) = 1

CORRECTING DEFECT 74 (vertices=12, convex hull=38, v0=117913)
After retessellation of defect 74 (v0=117913), euler #=-33 (144305,431968,287630) : difference with theory (-32) = 1

CORRECTING DEFECT 75 (vertices=33, convex hull=80, v0=117935)
After retessellation of defect 75 (v0=117935), euler #=-32 (144313,432022,287677) : difference with theory (-31) = 1

CORRECTING DEFECT 76 (vertices=38, convex hull=45, v0=119942)
After retessellation of defect 76 (v0=119942), euler #=-31 (144320,432059,287708) : difference with theory (-30) = 1

CORRECTING DEFECT 77 (vertices=43, convex hull=51, v0=120146)
After retessellation of defect 77 (v0=120146), euler #=-30 (144329,432104,287745) : difference with theory (-29) = 1

CORRECTING DEFECT 78 (vertices=213, convex hull=152, v0=120758)
After retessellation of defect 78 (v0=120758), euler #=-29 (144401,432394,287964) : difference with theory (-28) = 1

CORRECTING DEFECT 79 (vertices=6, convex hull=24, v0=122378)
After retessellation of defect 79 (v0=122378), euler #=-28 (144403,432409,287978) : difference with theory (-27) = 1

CORRECTING DEFECT 80 (vertices=83, convex hull=34, v0=123739)
After retessellation of defect 80 (v0=123739), euler #=-27 (144413,432450,288010) : difference with theory (-26) = 1

CORRECTING DEFECT 81 (vertices=88, convex hull=95, v0=124678)
After retessellation of defect 81 (v0=124678), euler #=-26 (144438,432565,288101) : difference with theory (-25) = 1

CORRECTING DEFECT 82 (vertices=78, convex hull=117, v0=125357)
After retessellation of defect 82 (v0=125357), euler #=-25 (144457,432680,288198) : difference with theory (-24) = 1

CORRECTING DEFECT 83 (vertices=22, convex hull=28, v0=126504)
After retessellation of defect 83 (v0=126504), euler #=-24 (144461,432699,288214) : difference with theory (-23) = 1

CORRECTING DEFECT 84 (vertices=26, convex hull=63, v0=126774)
After retessellation of defect 84 (v0=126774), euler #=-23 (144476,432772,288273) : difference with theory (-22) = 1

CORRECTING DEFECT 85 (vertices=40, convex hull=48, v0=128276)
After retessellation of defect 85 (v0=128276), euler #=-22 (144482,432808,288304) : difference with theory (-21) = 1

CORRECTING DEFECT 86 (vertices=202, convex hull=148, v0=129223)
After retessellation of defect 86 (v0=129223), euler #=-21 (144536,433044,288487) : difference with theory (-20) = 1

CORRECTING DEFECT 87 (vertices=5, convex hull=15, v0=130116)
After retessellation of defect 87 (v0=130116), euler #=-20 (144537,433051,288494) : difference with theory (-19) = 1

CORRECTING DEFECT 88 (vertices=27, convex hull=61, v0=132605)
After retessellation of defect 88 (v0=132605), euler #=-19 (144552,433120,288549) : difference with theory (-18) = 1

CORRECTING DEFECT 89 (vertices=12, convex hull=23, v0=133843)
After retessellation of defect 89 (v0=133843), euler #=-18 (144554,433134,288562) : difference with theory (-17) = 1

CORRECTING DEFECT 90 (vertices=86, convex hull=85, v0=136097)
After retessellation of defect 90 (v0=136097), euler #=-17 (144574,433225,288634) : difference with theory (-16) = 1

CORRECTING DEFECT 91 (vertices=156, convex hull=67, v0=137098)
After retessellation of defect 91 (v0=137098), euler #=-17 (144601,433347,288729) : difference with theory (-15) = 2

CORRECTING DEFECT 92 (vertices=78, convex hull=77, v0=137941)
After retessellation of defect 92 (v0=137941), euler #=-16 (144614,433423,288793) : difference with theory (-14) = 2

CORRECTING DEFECT 93 (vertices=46, convex hull=86, v0=138872)
After retessellation of defect 93 (v0=138872), euler #=-15 (144643,433547,288889) : difference with theory (-13) = 2

CORRECTING DEFECT 94 (vertices=91, convex hull=37, v0=139348)
After retessellation of defect 94 (v0=139348), euler #=-14 (144651,433582,288917) : difference with theory (-12) = 2

CORRECTING DEFECT 95 (vertices=135, convex hull=128, v0=141842)
After retessellation of defect 95 (v0=141842), euler #=-12 (144674,433719,289033) : difference with theory (-11) = 1

CORRECTING DEFECT 96 (vertices=107, convex hull=119, v0=142058)
After retessellation of defect 96 (v0=142058), euler #=-11 (144706,433868,289151) : difference with theory (-10) = 1

CORRECTING DEFECT 97 (vertices=16, convex hull=21, v0=144049)
After retessellation of defect 97 (v0=144049), euler #=-10 (144706,433873,289157) : difference with theory (-9) = 1

CORRECTING DEFECT 98 (vertices=132, convex hull=51, v0=146113)
After retessellation of defect 98 (v0=146113), euler #=-9 (144711,433909,289189) : difference with theory (-8) = 1

CORRECTING DEFECT 99 (vertices=17, convex hull=34, v0=146126)
After retessellation of defect 99 (v0=146126), euler #=-8 (144713,433926,289205) : difference with theory (-7) = 1

CORRECTING DEFECT 100 (vertices=67, convex hull=31, v0=149895)
After retessellation of defect 100 (v0=149895), euler #=-7 (144716,433945,289222) : difference with theory (-6) = 1

CORRECTING DEFECT 101 (vertices=42, convex hull=72, v0=150657)
After retessellation of defect 101 (v0=150657), euler #=-6 (144733,434027,289288) : difference with theory (-5) = 1

CORRECTING DEFECT 102 (vertices=32, convex hull=21, v0=150888)
After retessellation of defect 102 (v0=150888), euler #=-5 (144733,434033,289295) : difference with theory (-4) = 1

CORRECTING DEFECT 103 (vertices=45, convex hull=88, v0=152413)
After retessellation of defect 103 (v0=152413), euler #=-4 (144762,434155,289389) : difference with theory (-3) = 1

CORRECTING DEFECT 104 (vertices=70, convex hull=64, v0=152470)
After retessellation of defect 104 (v0=152470), euler #=-3 (144771,434204,289430) : difference with theory (-2) = 1

CORRECTING DEFECT 105 (vertices=42, convex hull=82, v0=153170)
After retessellation of defect 105 (v0=153170), euler #=-2 (144792,434302,289508) : difference with theory (-1) = 1

CORRECTING DEFECT 106 (vertices=95, convex hull=95, v0=153708)
After retessellation of defect 106 (v0=153708), euler #=0 (144810,434396,289586) : difference with theory (0) = 0

CORRECTING DEFECT 107 (vertices=24, convex hull=59, v0=154333)
After retessellation of defect 107 (v0=154333), euler #=1 (144819,434445,289627) : difference with theory (1) = 0

CORRECTING DEFECT 108 (vertices=14, convex hull=22, v0=155048)
After retessellation of defect 108 (v0=155048), euler #=2 (144820,434454,289636) : difference with theory (2) = 0
computing original vertex metric properties...
storing new metric properties...
computing tessellation statistics...
vertex spacing 0.90 +- 0.33 (0.02-->17.37) (max @ vno 126427 --> 147285)
face area 0.00 +- 0.00 (0.00-->0.00)
performing soap bubble on retessellated vertices for 0 iterations...
vertex spacing 0.90 +- 0.33 (0.02-->17.37) (max @ vno 126427 --> 147285)
face area 0.00 +- 0.00 (0.00-->0.00)
tessellation finished, orienting corrected surface...
407 mutations (37.3%), 684 crossovers (62.7%), 480 vertices were eliminated
building final representation...
10314 vertices and 0 faces have been removed from triangulation
after topology correction, eno=2 (nv=144820, nf=289636, ne=434454, g=0)
writing corrected surface to /study2/emowrap/data/freesurfer/subjects/066/surf/lh.orig...

0.000 % of the vertices (0 vertices) exhibit an orientation change
topology fixing took 200.8 minutes
0 defective edges
removing intersecting faces
000: 1402 intersecting
001: 108 intersecting
002: 11 intersecting
mris_fix_topology utimesec    12022.265854
mris_fix_topology stimesec    17.806637
mris_fix_topology ru_maxrss   605800
mris_fix_topology ru_ixrss    0
mris_fix_topology ru_idrss    0
mris_fix_topology ru_isrss    0
mris_fix_topology ru_minflt   6371719
mris_fix_topology ru_majflt   0
mris_fix_topology ru_nswap    0
mris_fix_topology ru_inblock  0
mris_fix_topology ru_oublock  13832
mris_fix_topology ru_msgsnd   0
mris_fix_topology ru_msgrcv   0
mris_fix_topology ru_nsignals 0
mris_fix_topology ru_nvcsw    259
mris_fix_topology ru_nivcsw   337085
FSRUNTIME@ mris_fix_topology lh  3.3469 hours 1 threads
#@# Fix Topology rh Fri Jan 10 14:30:45 CST 2020

 mris_fix_topology -rusage /study2/emowrap/data/freesurfer/subjects/066/touch/rusage.mris_fix_topology.rh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 066 rh

reading spherical homeomorphism from 'qsphere.nofix'
using genetic algorithm with optimized parameters
setting seed for random number genererator to 1234

*************************************************************
Topology Correction Parameters
retessellation mode:           genetic search
number of patches/generation : 10
number of generations :        10
surface mri loglikelihood coefficient :         1.0
volume mri loglikelihood coefficient :          10.0
normal dot loglikelihood coefficient :          1.0
quadratic curvature loglikelihood coefficient : 1.0
volume resolution :                             2
eliminate vertices during search :              1
initial patch selection :                       1
select all defect vertices :                    0
ordering dependant retessellation:              0
use precomputed edge table :                    0
smooth retessellated patch :                    2
match retessellated patch :                     1
verbose mode :                                  0

*************************************************************
INFO: assuming .mgz format
$Id: mris_fix_topology.c,v 1.50.2.1 2016/10/27 22:25:58 zkaufman Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
before topology correction, eno=-252 (nv=158488, nf=317480, ne=476220, g=127)
using quasi-homeomorphic spherical map to tessellate cortical surface...

Correction of the Topology
Finding true center and radius of Spherical Surface...done
Surface centered at (0,0,0) with radius 100.0 in 10 iterations
marking ambiguous vertices...
14936 ambiguous faces found in tessellation
segmenting defects...
134 defects found, arbitrating ambiguous regions...
analyzing neighboring defects...
      -merging segment 2 into 0
      -merging segment 37 into 33
      -merging segment 48 into 40
      -merging segment 80 into 69
      -merging segment 77 into 72
      -merging segment 105 into 100
      -merging segment 120 into 118
127 defects to be corrected
0 vertices coincident
reading input surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.qsphere.nofix...
reading brain volume from brain...
reading wm segmentation from wm...
Computing Initial Surface Statistics
      -face       loglikelihood: -9.6942  (-4.8471)
      -vertex     loglikelihood: -6.7847  (-3.3923)
      -normal dot loglikelihood: -3.6028  (-3.6028)
      -quad curv  loglikelihood: -6.4611  (-3.2305)
      Total Loglikelihood : -26.5427

CORRECTING DEFECT 0 (vertices=1127, convex hull=353, v0=6)
After retessellation of defect 0 (v0=6), euler #=-128 (149580,445517,295809) : difference with theory (-124) = 4

CORRECTING DEFECT 1 (vertices=29, convex hull=60, v0=67)
After retessellation of defect 1 (v0=67), euler #=-127 (149589,445570,295854) : difference with theory (-123) = 4

CORRECTING DEFECT 2 (vertices=113, convex hull=72, v0=276)
After retessellation of defect 2 (v0=276), euler #=-126 (149601,445642,295915) : difference with theory (-122) = 4

CORRECTING DEFECT 3 (vertices=312, convex hull=117, v0=530)
After retessellation of defect 3 (v0=530), euler #=-125 (149633,445792,296034) : difference with theory (-121) = 4

CORRECTING DEFECT 4 (vertices=17, convex hull=18, v0=946)
After retessellation of defect 4 (v0=946), euler #=-124 (149633,445798,296041) : difference with theory (-120) = 4

CORRECTING DEFECT 5 (vertices=5, convex hull=19, v0=2511)
After retessellation of defect 5 (v0=2511), euler #=-123 (149633,445803,296047) : difference with theory (-119) = 4

CORRECTING DEFECT 6 (vertices=366, convex hull=122, v0=2955)
After retessellation of defect 6 (v0=2955), euler #=-122 (149660,445937,296155) : difference with theory (-118) = 4

CORRECTING DEFECT 7 (vertices=39, convex hull=86, v0=4253)
After retessellation of defect 7 (v0=4253), euler #=-121 (149678,446027,296228) : difference with theory (-117) = 4

CORRECTING DEFECT 8 (vertices=5, convex hull=18, v0=6389)
After retessellation of defect 8 (v0=6389), euler #=-120 (149679,446034,296235) : difference with theory (-116) = 4

CORRECTING DEFECT 9 (vertices=49, convex hull=74, v0=8310)
After retessellation of defect 9 (v0=8310), euler #=-119 (149707,446147,296321) : difference with theory (-115) = 4

CORRECTING DEFECT 10 (vertices=21, convex hull=67, v0=12474)
After retessellation of defect 10 (v0=12474), euler #=-118 (149719,446203,296366) : difference with theory (-114) = 4

CORRECTING DEFECT 11 (vertices=48, convex hull=71, v0=17996)
After retessellation of defect 11 (v0=17996), euler #=-117 (149750,446321,296454) : difference with theory (-113) = 4

CORRECTING DEFECT 12 (vertices=42, convex hull=90, v0=18451)
After retessellation of defect 12 (v0=18451), euler #=-116 (149770,446417,296531) : difference with theory (-112) = 4

CORRECTING DEFECT 13 (vertices=22, convex hull=50, v0=28108)
After retessellation of defect 13 (v0=28108), euler #=-115 (149779,446462,296568) : difference with theory (-111) = 4

CORRECTING DEFECT 14 (vertices=8, convex hull=14, v0=30802)
After retessellation of defect 14 (v0=30802), euler #=-114 (149780,446470,296576) : difference with theory (-110) = 4

CORRECTING DEFECT 15 (vertices=12, convex hull=24, v0=32807)
After retessellation of defect 15 (v0=32807), euler #=-113 (149781,446481,296587) : difference with theory (-109) = 4

CORRECTING DEFECT 16 (vertices=25, convex hull=31, v0=35111)
After retessellation of defect 16 (v0=35111), euler #=-112 (149783,446497,296602) : difference with theory (-108) = 4

CORRECTING DEFECT 17 (vertices=71, convex hull=91, v0=37609)
After retessellation of defect 17 (v0=37609), euler #=-111 (149817,446642,296714) : difference with theory (-107) = 4

CORRECTING DEFECT 18 (vertices=58, convex hull=22, v0=40081)
After retessellation of defect 18 (v0=40081), euler #=-110 (149821,446661,296730) : difference with theory (-106) = 4

CORRECTING DEFECT 19 (vertices=55, convex hull=40, v0=41995)
After retessellation of defect 19 (v0=41995), euler #=-109 (149830,446703,296764) : difference with theory (-105) = 4

CORRECTING DEFECT 20 (vertices=50, convex hull=31, v0=45494)
After retessellation of defect 20 (v0=45494), euler #=-108 (149837,446734,296789) : difference with theory (-104) = 4

CORRECTING DEFECT 21 (vertices=84, convex hull=85, v0=47311)
After retessellation of defect 21 (v0=47311), euler #=-107 (149875,446889,296907) : difference with theory (-103) = 4

CORRECTING DEFECT 22 (vertices=6, convex hull=14, v0=54111)
After retessellation of defect 22 (v0=54111), euler #=-106 (149875,446892,296911) : difference with theory (-102) = 4

CORRECTING DEFECT 23 (vertices=82, convex hull=54, v0=55388)
After retessellation of defect 23 (v0=55388), euler #=-105 (149884,446940,296951) : difference with theory (-101) = 4

CORRECTING DEFECT 24 (vertices=26, convex hull=25, v0=55935)
After retessellation of defect 24 (v0=55935), euler #=-104 (149886,446955,296965) : difference with theory (-100) = 4

CORRECTING DEFECT 25 (vertices=18, convex hull=46, v0=56802)
After retessellation of defect 25 (v0=56802), euler #=-103 (149896,447002,297003) : difference with theory (-99) = 4

CORRECTING DEFECT 26 (vertices=17, convex hull=56, v0=57523)
After retessellation of defect 26 (v0=57523), euler #=-102 (149905,447048,297041) : difference with theory (-98) = 4

CORRECTING DEFECT 27 (vertices=31, convex hull=31, v0=58488)
After retessellation of defect 27 (v0=58488), euler #=-101 (149908,447066,297057) : difference with theory (-97) = 4

CORRECTING DEFECT 28 (vertices=29, convex hull=20, v0=58988)
After retessellation of defect 28 (v0=58988), euler #=-100 (149909,447075,297066) : difference with theory (-96) = 4

CORRECTING DEFECT 29 (vertices=147, convex hull=183, v0=59861)
After retessellation of defect 29 (v0=59861), euler #=-99 (149930,447224,297195) : difference with theory (-95) = 4

CORRECTING DEFECT 30 (vertices=45, convex hull=18, v0=61184)
After retessellation of defect 30 (v0=61184), euler #=-98 (149934,447239,297207) : difference with theory (-94) = 4

CORRECTING DEFECT 31 (vertices=30, convex hull=60, v0=61989)
After retessellation of defect 31 (v0=61989), euler #=-97 (149952,447314,297265) : difference with theory (-93) = 4

CORRECTING DEFECT 32 (vertices=61, convex hull=66, v0=65286)
After retessellation of defect 32 (v0=65286), euler #=-95 (149961,447371,297315) : difference with theory (-92) = 3

CORRECTING DEFECT 33 (vertices=72, convex hull=51, v0=66909)
After retessellation of defect 33 (v0=66909), euler #=-94 (149975,447431,297362) : difference with theory (-91) = 3

CORRECTING DEFECT 34 (vertices=24, convex hull=23, v0=68076)
After retessellation of defect 34 (v0=68076), euler #=-93 (149979,447452,297380) : difference with theory (-90) = 3

CORRECTING DEFECT 35 (vertices=42, convex hull=76, v0=69250)
After retessellation of defect 35 (v0=69250), euler #=-92 (149988,447507,297427) : difference with theory (-89) = 3

CORRECTING DEFECT 36 (vertices=42, convex hull=70, v0=69377)
After retessellation of defect 36 (v0=69377), euler #=-91 (149997,447568,297480) : difference with theory (-88) = 3

CORRECTING DEFECT 37 (vertices=34, convex hull=52, v0=69460)
After retessellation of defect 37 (v0=69460), euler #=-90 (150006,447620,297524) : difference with theory (-87) = 3

CORRECTING DEFECT 38 (vertices=669, convex hull=395, v0=71670)
After retessellation of defect 38 (v0=71670), euler #=-88 (150151,448248,298009) : difference with theory (-86) = 2

CORRECTING DEFECT 39 (vertices=25, convex hull=47, v0=74086)
After retessellation of defect 39 (v0=74086), euler #=-87 (150163,448304,298054) : difference with theory (-85) = 2

CORRECTING DEFECT 40 (vertices=20, convex hull=32, v0=74504)
After retessellation of defect 40 (v0=74504), euler #=-86 (150165,448322,298071) : difference with theory (-84) = 2

CORRECTING DEFECT 41 (vertices=27, convex hull=47, v0=75129)
After retessellation of defect 41 (v0=75129), euler #=-85 (150176,448372,298111) : difference with theory (-83) = 2

CORRECTING DEFECT 42 (vertices=7, convex hull=20, v0=75163)
After retessellation of defect 42 (v0=75163), euler #=-84 (150178,448383,298121) : difference with theory (-82) = 2

CORRECTING DEFECT 43 (vertices=80, convex hull=56, v0=77623)
After retessellation of defect 43 (v0=77623), euler #=-83 (150199,448470,298188) : difference with theory (-81) = 2

CORRECTING DEFECT 44 (vertices=137, convex hull=64, v0=77922)
After retessellation of defect 44 (v0=77922), euler #=-82 (150224,448568,298262) : difference with theory (-80) = 2

CORRECTING DEFECT 45 (vertices=55, convex hull=77, v0=78779)
After retessellation of defect 45 (v0=78779), euler #=-81 (150252,448685,298352) : difference with theory (-79) = 2

CORRECTING DEFECT 46 (vertices=24, convex hull=24, v0=79164)
After retessellation of defect 46 (v0=79164), euler #=-80 (150254,448697,298363) : difference with theory (-78) = 2

CORRECTING DEFECT 47 (vertices=8, convex hull=17, v0=79203)
After retessellation of defect 47 (v0=79203), euler #=-79 (150255,448702,298368) : difference with theory (-77) = 2

CORRECTING DEFECT 48 (vertices=30, convex hull=23, v0=80650)
After retessellation of defect 48 (v0=80650), euler #=-78 (150257,448713,298378) : difference with theory (-76) = 2

CORRECTING DEFECT 49 (vertices=179, convex hull=48, v0=84087)
After retessellation of defect 49 (v0=84087), euler #=-77 (150274,448780,298429) : difference with theory (-75) = 2

CORRECTING DEFECT 50 (vertices=9, convex hull=23, v0=91283)
After retessellation of defect 50 (v0=91283), euler #=-76 (150275,448790,298439) : difference with theory (-74) = 2

CORRECTING DEFECT 51 (vertices=157, convex hull=151, v0=92381)
After retessellation of defect 51 (v0=92381), euler #=-75 (150320,449002,298607) : difference with theory (-73) = 2

CORRECTING DEFECT 52 (vertices=17, convex hull=30, v0=95370)
After retessellation of defect 52 (v0=95370), euler #=-74 (150323,449017,298620) : difference with theory (-72) = 2

CORRECTING DEFECT 53 (vertices=43, convex hull=31, v0=95890)
After retessellation of defect 53 (v0=95890), euler #=-73 (150324,449031,298634) : difference with theory (-71) = 2

CORRECTING DEFECT 54 (vertices=100, convex hull=115, v0=96271)
After retessellation of defect 54 (v0=96271), euler #=-72 (150352,449167,298743) : difference with theory (-70) = 2

CORRECTING DEFECT 55 (vertices=28, convex hull=28, v0=96462)
After retessellation of defect 55 (v0=96462), euler #=-71 (150357,449189,298761) : difference with theory (-69) = 2

CORRECTING DEFECT 56 (vertices=165, convex hull=34, v0=97152)
After retessellation of defect 56 (v0=97152), euler #=-70 (150366,449226,298790) : difference with theory (-68) = 2

CORRECTING DEFECT 57 (vertices=42, convex hull=60, v0=97937)
After retessellation of defect 57 (v0=97937), euler #=-69 (150382,449297,298846) : difference with theory (-67) = 2

CORRECTING DEFECT 58 (vertices=10, convex hull=29, v0=98149)
After retessellation of defect 58 (v0=98149), euler #=-68 (150385,449314,298861) : difference with theory (-66) = 2

CORRECTING DEFECT 59 (vertices=19, convex hull=22, v0=98481)
After retessellation of defect 59 (v0=98481), euler #=-67 (150387,449328,298874) : difference with theory (-65) = 2

CORRECTING DEFECT 60 (vertices=26, convex hull=29, v0=98541)
After retessellation of defect 60 (v0=98541), euler #=-66 (150389,449344,298889) : difference with theory (-64) = 2

CORRECTING DEFECT 61 (vertices=38, convex hull=75, v0=100959)
After retessellation of defect 61 (v0=100959), euler #=-65 (150398,449402,298939) : difference with theory (-63) = 2

CORRECTING DEFECT 62 (vertices=22, convex hull=25, v0=101170)
After retessellation of defect 62 (v0=101170), euler #=-64 (150402,449420,298954) : difference with theory (-62) = 2

CORRECTING DEFECT 63 (vertices=18, convex hull=24, v0=101579)
After retessellation of defect 63 (v0=101579), euler #=-63 (150405,449436,298968) : difference with theory (-61) = 2

CORRECTING DEFECT 64 (vertices=18, convex hull=45, v0=104574)
After retessellation of defect 64 (v0=104574), euler #=-62 (150415,449484,299007) : difference with theory (-60) = 2

CORRECTING DEFECT 65 (vertices=31, convex hull=24, v0=105077)
After retessellation of defect 65 (v0=105077), euler #=-61 (150420,449509,299028) : difference with theory (-59) = 2

CORRECTING DEFECT 66 (vertices=530, convex hull=319, v0=105739)
After retessellation of defect 66 (v0=105739), euler #=-59 (150620,450287,299608) : difference with theory (-58) = 1

CORRECTING DEFECT 67 (vertices=25, convex hull=28, v0=106402)
After retessellation of defect 67 (v0=106402), euler #=-59 (150624,450313,299630) : difference with theory (-57) = 2

CORRECTING DEFECT 68 (vertices=38, convex hull=48, v0=106438)
After retessellation of defect 68 (v0=106438), euler #=-58 (150636,450367,299673) : difference with theory (-56) = 2

CORRECTING DEFECT 69 (vertices=121, convex hull=93, v0=106561)
After retessellation of defect 69 (v0=106561), euler #=-56 (150672,450521,299793) : difference with theory (-55) = 1

CORRECTING DEFECT 70 (vertices=23, convex hull=29, v0=106861)
After retessellation of defect 70 (v0=106861), euler #=-55 (150674,450537,299808) : difference with theory (-54) = 1

CORRECTING DEFECT 71 (vertices=82, convex hull=92, v0=107242)
After retessellation of defect 71 (v0=107242), euler #=-54 (150696,450641,299891) : difference with theory (-53) = 1

CORRECTING DEFECT 72 (vertices=8, convex hull=16, v0=107380)
After retessellation of defect 72 (v0=107380), euler #=-53 (150698,450650,299899) : difference with theory (-52) = 1

CORRECTING DEFECT 73 (vertices=25, convex hull=24, v0=110131)
After retessellation of defect 73 (v0=110131), euler #=-52 (150703,450670,299915) : difference with theory (-51) = 1

CORRECTING DEFECT 74 (vertices=21, convex hull=43, v0=110926)
After retessellation of defect 74 (v0=110926), euler #=-51 (150710,450704,299943) : difference with theory (-50) = 1

CORRECTING DEFECT 75 (vertices=67, convex hull=66, v0=112798)
After retessellation of defect 75 (v0=112798), euler #=-50 (150727,450783,300006) : difference with theory (-49) = 1

CORRECTING DEFECT 76 (vertices=25, convex hull=60, v0=114119)
After retessellation of defect 76 (v0=114119), euler #=-49 (150736,450832,300047) : difference with theory (-48) = 1

CORRECTING DEFECT 77 (vertices=133, convex hull=121, v0=114200)
After retessellation of defect 77 (v0=114200), euler #=-48 (150772,450996,300176) : difference with theory (-47) = 1

CORRECTING DEFECT 78 (vertices=95, convex hull=57, v0=114874)
After retessellation of defect 78 (v0=114874), euler #=-47 (150781,451047,300219) : difference with theory (-46) = 1

CORRECTING DEFECT 79 (vertices=21, convex hull=59, v0=115139)
After retessellation of defect 79 (v0=115139), euler #=-46 (150789,451093,300258) : difference with theory (-45) = 1

CORRECTING DEFECT 80 (vertices=44, convex hull=41, v0=115570)
After retessellation of defect 80 (v0=115570), euler #=-45 (150803,451149,300301) : difference with theory (-44) = 1

CORRECTING DEFECT 81 (vertices=424, convex hull=284, v0=120017)
After retessellation of defect 81 (v0=120017), euler #=-44 (150924,451660,300692) : difference with theory (-43) = 1

CORRECTING DEFECT 82 (vertices=17, convex hull=18, v0=122440)
After retessellation of defect 82 (v0=122440), euler #=-43 (150926,451669,300700) : difference with theory (-42) = 1

CORRECTING DEFECT 83 (vertices=65, convex hull=78, v0=122485)
After retessellation of defect 83 (v0=122485), euler #=-42 (150963,451814,300809) : difference with theory (-41) = 1

CORRECTING DEFECT 84 (vertices=65, convex hull=104, v0=123346)
After retessellation of defect 84 (v0=123346), euler #=-41 (150993,451948,300914) : difference with theory (-40) = 1

CORRECTING DEFECT 85 (vertices=30, convex hull=33, v0=123791)
After retessellation of defect 85 (v0=123791), euler #=-40 (150997,451975,300938) : difference with theory (-39) = 1

CORRECTING DEFECT 86 (vertices=70, convex hull=57, v0=124428)
After retessellation of defect 86 (v0=124428), euler #=-39 (151018,452060,301003) : difference with theory (-38) = 1

CORRECTING DEFECT 87 (vertices=68, convex hull=118, v0=127181)
After retessellation of defect 87 (v0=127181), euler #=-38 (151038,452171,301095) : difference with theory (-37) = 1

CORRECTING DEFECT 88 (vertices=130, convex hull=132, v0=127829)
After retessellation of defect 88 (v0=127829), euler #=-37 (151067,452320,301216) : difference with theory (-36) = 1

CORRECTING DEFECT 89 (vertices=5, convex hull=21, v0=128782)
After retessellation of defect 89 (v0=128782), euler #=-36 (151068,452328,301224) : difference with theory (-35) = 1

CORRECTING DEFECT 90 (vertices=25, convex hull=57, v0=129256)
After retessellation of defect 90 (v0=129256), euler #=-35 (151077,452377,301265) : difference with theory (-34) = 1

CORRECTING DEFECT 91 (vertices=25, convex hull=72, v0=130017)
After retessellation of defect 91 (v0=130017), euler #=-34 (151092,452451,301325) : difference with theory (-33) = 1

CORRECTING DEFECT 92 (vertices=28, convex hull=65, v0=130606)
After retessellation of defect 92 (v0=130606), euler #=-33 (151105,452517,301379) : difference with theory (-32) = 1

CORRECTING DEFECT 93 (vertices=20, convex hull=20, v0=131931)
After retessellation of defect 93 (v0=131931), euler #=-32 (151108,452531,301391) : difference with theory (-31) = 1

CORRECTING DEFECT 94 (vertices=31, convex hull=63, v0=132279)
After retessellation of defect 94 (v0=132279), euler #=-31 (151119,452589,301439) : difference with theory (-30) = 1

CORRECTING DEFECT 95 (vertices=65, convex hull=139, v0=133120)
After retessellation of defect 95 (v0=133120), euler #=-29 (151140,452716,301547) : difference with theory (-29) = 0

CORRECTING DEFECT 96 (vertices=16, convex hull=16, v0=133240)
After retessellation of defect 96 (v0=133240), euler #=-28 (151141,452724,301555) : difference with theory (-28) = 0

CORRECTING DEFECT 97 (vertices=189, convex hull=173, v0=133973)
After retessellation of defect 97 (v0=133973), euler #=-27 (151164,452888,301697) : difference with theory (-27) = 0

CORRECTING DEFECT 98 (vertices=45, convex hull=57, v0=134512)
After retessellation of defect 98 (v0=134512), euler #=-26 (151174,452944,301744) : difference with theory (-26) = 0

CORRECTING DEFECT 99 (vertices=11, convex hull=26, v0=135898)
After retessellation of defect 99 (v0=135898), euler #=-25 (151176,452959,301758) : difference with theory (-25) = 0

CORRECTING DEFECT 100 (vertices=28, convex hull=53, v0=137390)
After retessellation of defect 100 (v0=137390), euler #=-24 (151194,453033,301815) : difference with theory (-24) = 0

CORRECTING DEFECT 101 (vertices=8, convex hull=18, v0=137994)
After retessellation of defect 101 (v0=137994), euler #=-23 (151196,453042,301823) : difference with theory (-23) = 0

CORRECTING DEFECT 102 (vertices=20, convex hull=54, v0=138439)
After retessellation of defect 102 (v0=138439), euler #=-22 (151207,453095,301866) : difference with theory (-22) = 0

CORRECTING DEFECT 103 (vertices=69, convex hull=41, v0=141345)
After retessellation of defect 103 (v0=141345), euler #=-21 (151215,453135,301899) : difference with theory (-21) = 0

CORRECTING DEFECT 104 (vertices=39, convex hull=71, v0=142576)
After retessellation of defect 104 (v0=142576), euler #=-20 (151234,453216,301962) : difference with theory (-20) = 0

CORRECTING DEFECT 105 (vertices=18, convex hull=44, v0=142862)
After retessellation of defect 105 (v0=142862), euler #=-19 (151243,453262,302000) : difference with theory (-19) = 0

CORRECTING DEFECT 106 (vertices=25, convex hull=52, v0=143166)
After retessellation of defect 106 (v0=143166), euler #=-18 (151256,453320,302046) : difference with theory (-18) = 0

CORRECTING DEFECT 107 (vertices=139, convex hull=128, v0=145309)
After retessellation of defect 107 (v0=145309), euler #=-17 (151292,453490,302181) : difference with theory (-17) = 0

CORRECTING DEFECT 108 (vertices=5, convex hull=17, v0=145375)
After retessellation of defect 108 (v0=145375), euler #=-16 (151294,453500,302190) : difference with theory (-16) = 0

CORRECTING DEFECT 109 (vertices=26, convex hull=22, v0=146217)
After retessellation of defect 109 (v0=146217), euler #=-15 (151294,453505,302196) : difference with theory (-15) = 0

CORRECTING DEFECT 110 (vertices=56, convex hull=107, v0=146730)
After retessellation of defect 110 (v0=146730), euler #=-14 (151309,453597,302274) : difference with theory (-14) = 0

CORRECTING DEFECT 111 (vertices=24, convex hull=53, v0=147180)
After retessellation of defect 111 (v0=147180), euler #=-13 (151318,453646,302315) : difference with theory (-13) = 0

CORRECTING DEFECT 112 (vertices=167, convex hull=100, v0=148277)
After retessellation of defect 112 (v0=148277), euler #=-11 (151341,453764,302412) : difference with theory (-12) = -1

CORRECTING DEFECT 113 (vertices=48, convex hull=69, v0=149613)
After retessellation of defect 113 (v0=149613), euler #=-10 (151359,453846,302477) : difference with theory (-11) = -1

CORRECTING DEFECT 114 (vertices=14, convex hull=14, v0=150222)
After retessellation of defect 114 (v0=150222), euler #=-9 (151360,453855,302486) : difference with theory (-10) = -1

CORRECTING DEFECT 115 (vertices=44, convex hull=45, v0=150465)
After retessellation of defect 115 (v0=150465), euler #=-8 (151374,453916,302534) : difference with theory (-9) = -1

CORRECTING DEFECT 116 (vertices=37, convex hull=62, v0=154239)
After retessellation of defect 116 (v0=154239), euler #=-7 (151392,453997,302598) : difference with theory (-8) = -1

CORRECTING DEFECT 117 (vertices=11, convex hull=16, v0=154561)
After retessellation of defect 117 (v0=154561), euler #=-6 (151393,454006,302607) : difference with theory (-7) = -1

CORRECTING DEFECT 118 (vertices=64, convex hull=92, v0=154584)
After retessellation of defect 118 (v0=154584), euler #=-5 (151406,454086,302675) : difference with theory (-6) = -1

CORRECTING DEFECT 119 (vertices=15, convex hull=24, v0=155605)
After retessellation of defect 119 (v0=155605), euler #=-4 (151407,454098,302687) : difference with theory (-5) = -1

CORRECTING DEFECT 120 (vertices=21, convex hull=67, v0=156195)
After retessellation of defect 120 (v0=156195), euler #=-3 (151414,454147,302730) : difference with theory (-4) = -1

CORRECTING DEFECT 121 (vertices=44, convex hull=29, v0=156360)
After retessellation of defect 121 (v0=156360), euler #=-3 (151422,454185,302760) : difference with theory (-3) = 0

CORRECTING DEFECT 122 (vertices=116, convex hull=58, v0=156750)
After retessellation of defect 122 (v0=156750), euler #=-2 (151442,454272,302828) : difference with theory (-2) = 0

CORRECTING DEFECT 123 (vertices=18, convex hull=29, v0=157578)
After retessellation of defect 123 (v0=157578), euler #=-1 (151443,454285,302841) : difference with theory (-1) = 0

CORRECTING DEFECT 124 (vertices=103, convex hull=33, v0=157632)
After retessellation of defect 124 (v0=157632), euler #=0 (151451,454321,302870) : difference with theory (0) = 0

CORRECTING DEFECT 125 (vertices=24, convex hull=51, v0=157904)
After retessellation of defect 125 (v0=157904), euler #=1 (151457,454356,302900) : difference with theory (1) = 0

CORRECTING DEFECT 126 (vertices=20, convex hull=30, v0=157914)
After retessellation of defect 126 (v0=157914), euler #=2 (151460,454374,302916) : difference with theory (2) = 0
computing original vertex metric properties...
storing new metric properties...
computing tessellation statistics...
vertex spacing 0.89 +- 0.26 (0.03-->10.80) (max @ vno 140 --> 761)
face area 0.00 +- 0.00 (0.00-->0.00)
performing soap bubble on retessellated vertices for 0 iterations...
vertex spacing 0.89 +- 0.26 (0.03-->10.80) (max @ vno 140 --> 761)
face area 0.00 +- 0.00 (0.00-->0.00)
tessellation finished, orienting corrected surface...
462 mutations (35.2%), 850 crossovers (64.8%), 614 vertices were eliminated
building final representation...
7028 vertices and 0 faces have been removed from triangulation
after topology correction, eno=2 (nv=151460, nf=302916, ne=454374, g=0)
writing corrected surface to /study2/emowrap/data/freesurfer/subjects/066/surf/rh.orig...

0.000 % of the vertices (0 vertices) exhibit an orientation change
topology fixing took 116.9 minutes
0 defective edges
removing intersecting faces
000: 992 intersecting
001: 27 intersecting
mris_fix_topology utimesec    6995.185857
mris_fix_topology stimesec    11.410182
mris_fix_topology ru_maxrss   487748
mris_fix_topology ru_ixrss    0
mris_fix_topology ru_idrss    0
mris_fix_topology ru_isrss    0
mris_fix_topology ru_minflt   6703176
mris_fix_topology ru_majflt   0
mris_fix_topology ru_nswap    0
mris_fix_topology ru_inblock  0
mris_fix_topology ru_oublock  14376
mris_fix_topology ru_msgsnd   0
mris_fix_topology ru_msgrcv   0
mris_fix_topology ru_nsignals 0
mris_fix_topology ru_nvcsw    247
mris_fix_topology ru_nivcsw   75085
FSRUNTIME@ mris_fix_topology rh  1.9478 hours 1 threads

 mris_euler_number ../surf/lh.orig

euler # = v-e+f = 2g-2: 144820 - 434454 + 289636 = 2 --> 0 holes
      F =2V-4:          289636 = 289640-4 (0)
      2E=3F:            868908 = 868908 (0)

total defect index = 0

 mris_euler_number ../surf/rh.orig

euler # = v-e+f = 2g-2: 151460 - 454374 + 302916 = 2 --> 0 holes
      F =2V-4:          302916 = 302920-4 (0)
      2E=3F:            908748 = 908748 (0)

total defect index = 0
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_remove_intersection ../surf/lh.orig ../surf/lh.orig

intersection removal took 0.00 hours
removing intersecting faces
000: 568 intersecting
001: 69 intersecting
002: 2 intersecting
writing corrected surface to ../surf/lh.orig

 rm ../surf/lh.inflated

/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_remove_intersection ../surf/rh.orig ../surf/rh.orig

intersection removal took 0.00 hours
removing intersecting faces
000: 128 intersecting
001: 12 intersecting
002: 5 intersecting
writing corrected surface to ../surf/rh.orig

 rm ../surf/rh.inflated

#--------------------------------------------
#@# Make White Surf lh Fri Jan 10 16:28:02 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 066 lh

using white.preaparc as white matter name...
only generating white matter surface
using aseg volume ../mri/aseg.presurf to prevent surfaces crossing the midline
not using aparc to prevent surfaces crossing the midline
INFO: assuming MGZ format for volumes.
using brain.finalsurfs as T1 volume...
$Id: mris_make_surfaces.c,v 1.164.2.4 2016/12/13 22:26:32 zkaufman Exp $
$Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/filled.mgz...
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/brain.finalsurfs.mgz...
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/../mri/aseg.presurf.mgz...
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/wm.mgz...
30313 bright wm thresholded.
4930 bright non-wm voxels segmented.
reading original surface position from /study2/emowrap/data/freesurfer/subjects/066/surf/lh.orig...
computing class statistics...
border white:    294007 voxels (1.75%)
border gray      332888 voxels (1.98%)
WM (96.0): 96.8 +- 9.0 [70.0 --> 110.0]
GM (70.0) : 68.3 +- 12.7 [30.0 --> 110.0]
setting MIN_GRAY_AT_WHITE_BORDER to 56.3 (was 70)
setting MAX_BORDER_WHITE to 112.0 (was 105)
setting MIN_BORDER_WHITE to 69.0 (was 85)
setting MAX_CSF to 43.6 (was 40)
setting MAX_GRAY to 94.0 (was 95)
setting MAX_GRAY_AT_CSF_BORDER to 56.3 (was 75)
setting MIN_GRAY_AT_CSF_BORDER to 30.9 (was 40)
repositioning cortical surface to gray/white boundary
smoothing T1 volume with sigma = 2.000
vertex spacing 0.82 +- 0.27 (0.01-->9.88) (max @ vno 141856 --> 141857)
face area 0.28 +- 0.16 (0.00-->15.01)
mean absolute distance = 0.93 +- 1.29
5138 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
using class modes intead of means, discounting robust sigmas....
intensity peaks found at WM=103+-10.4,    GM=69+-11.3
mean inside = 90.6, mean outside = 70.7
smoothing surface for 5 iterations...
inhibiting deformation at non-cortical midline structures...
mean border=80.1, 856 (856) missing vertices, mean dist 0.0 [1.1 (%40.6)->0.8 (%59.4))]
%34 local maxima, %61 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=2.0, host=c139., nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
complete_dist_mat 0
rms 0
smooth_averages 0
remove_neg 0
ico_order 0
which_surface 0
target_radius 0.000000
nfields 0
scale 0.000000
desired_rms_height 0.000000
momentum 0.000000
nbhd_size 0
max_nbrs 0
niterations 25
nsurfaces 0
SURFACES 3
flags 0 (0)
use curv 0
no sulc 0
no rigid align 0
mris->nsize 2
mris->hemisphere 0
randomSeed 0

smoothing T1 volume with sigma = 1.000
vertex spacing 0.93 +- 0.31 (0.01-->9.54) (max @ vno 142256 --> 142257)
face area 0.28 +- 0.17 (0.00-->12.17)
mean absolute distance = 0.51 +- 0.80
4898 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
000: dt: 0.0000, sse=6230518.5, rms=14.254
001: dt: 0.5000, sse=4068553.0, rms=11.243 (21.121%)
002: dt: 0.5000, sse=3123666.2, rms=9.597 (14.641%)
003: dt: 0.5000, sse=2692541.0, rms=8.750 (8.826%)
004: dt: 0.5000, sse=2494710.8, rms=8.268 (5.513%)
005: dt: 0.5000, sse=2328268.5, rms=7.949 (3.862%)
006: dt: 0.5000, sse=2219918.5, rms=7.690 (3.253%)
007: dt: 0.5000, sse=2129605.8, rms=7.463 (2.954%)
008: dt: 0.5000, sse=2050321.5, rms=7.233 (3.076%)
009: dt: 0.5000, sse=1956525.9, rms=7.018 (2.969%)
010: dt: 0.5000, sse=1879571.5, rms=6.815 (2.894%)
011: dt: 0.5000, sse=1804467.9, rms=6.636 (2.636%)
012: dt: 0.5000, sse=1752233.0, rms=6.447 (2.838%)
013: dt: 0.5000, sse=1685022.5, rms=6.290 (2.447%)
014: dt: 0.5000, sse=1636466.1, rms=6.136 (2.443%)
015: dt: 0.5000, sse=1588696.1, rms=5.990 (2.380%)
016: dt: 0.5000, sse=1548315.9, rms=5.843 (2.455%)
017: dt: 0.5000, sse=1504693.8, rms=5.703 (2.391%)
018: dt: 0.5000, sse=1480113.6, rms=5.572 (2.301%)
019: dt: 0.5000, sse=1431180.1, rms=5.476 (1.719%)
020: dt: 0.5000, sse=1401686.1, rms=5.363 (2.068%)
021: dt: 0.5000, sse=1366968.9, rms=5.273 (1.683%)
022: dt: 0.5000, sse=1357215.4, rms=5.169 (1.968%)
023: dt: 0.5000, sse=1320610.9, rms=5.090 (1.530%)
024: dt: 0.5000, sse=1297976.4, rms=5.009 (1.593%)
025: dt: 0.5000, sse=1276356.5, rms=4.944 (1.302%)
positioning took 4.3 minutes
inhibiting deformation at non-cortical midline structures...
removing 4 vertex label from ripped group
removing 2 vertex label from ripped group
removing 4 vertex label from ripped group
removing 1 vertex label from ripped group
removing 2 vertex label from ripped group
removing 2 vertex label from ripped group
mean border=83.3, 681 (363) missing vertices, mean dist -0.3 [0.6 (%64.2)->0.3 (%35.8))]
%55 local maxima, %39 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=1.0, host=c139., nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 0.500
vertex spacing 0.90 +- 0.30 (0.06-->11.38) (max @ vno 142176 --> 142177)
face area 0.36 +- 0.23 (0.00-->16.45)
mean absolute distance = 0.33 +- 0.52
4158 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
000: dt: 0.0000, sse=1971014.8, rms=6.643
026: dt: 0.5000, sse=1475916.1, rms=5.093 (23.327%)
027: dt: 0.5000, sse=1417867.2, rms=4.811 (5.540%)
028: dt: 0.5000, sse=1417470.8, rms=4.688 (2.545%)
rms = 4.65, time step reduction 1 of 3 to 0.250...
029: dt: 0.5000, sse=1371472.0, rms=4.651 (0.796%)
030: dt: 0.2500, sse=1166714.9, rms=3.730 (19.800%)
031: dt: 0.2500, sse=1111114.5, rms=3.463 (7.160%)
032: dt: 0.2500, sse=1106271.2, rms=3.364 (2.873%)
033: dt: 0.2500, sse=1083123.4, rms=3.303 (1.803%)
rms = 3.26, time step reduction 2 of 3 to 0.125...
034: dt: 0.2500, sse=1081223.9, rms=3.264 (1.170%)
035: dt: 0.1250, sse=1064399.4, rms=3.192 (2.205%)
rms = 3.17, time step reduction 3 of 3 to 0.062...
036: dt: 0.1250, sse=1052811.2, rms=3.167 (0.799%)
positioning took 1.8 minutes
inhibiting deformation at non-cortical midline structures...
removing 2 vertex label from ripped group
removing 2 vertex label from ripped group
removing 4 vertex label from ripped group
removing 3 vertex label from ripped group
removing 2 vertex label from ripped group
removing 2 vertex label from ripped group
mean border=85.9, 652 (294) missing vertices, mean dist -0.2 [0.4 (%69.9)->0.2 (%30.1))]
%72 local maxima, %21 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=0.5, host=c139., nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 0.250
vertex spacing 0.89 +- 0.31 (0.03-->12.08) (max @ vno 142176 --> 142177)
face area 0.34 +- 0.22 (0.00-->15.70)
mean absolute distance = 0.26 +- 0.41
4072 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
000: dt: 0.0000, sse=1359032.5, rms=4.804
037: dt: 0.5000, sse=1207879.6, rms=4.081 (15.044%)
rms = 4.25, time step reduction 1 of 3 to 0.250...
038: dt: 0.2500, sse=1072228.0, rms=3.515 (13.870%)
039: dt: 0.2500, sse=1028016.2, rms=3.276 (6.793%)
040: dt: 0.2500, sse=1019194.8, rms=3.195 (2.483%)
rms = 3.17, time step reduction 2 of 3 to 0.125...
041: dt: 0.2500, sse=1006739.2, rms=3.172 (0.711%)
042: dt: 0.1250, sse=997672.8, rms=3.112 (1.881%)
rms = 3.10, time step reduction 3 of 3 to 0.062...
043: dt: 0.1250, sse=1010139.8, rms=3.099 (0.428%)
positioning took 1.3 minutes
inhibiting deformation at non-cortical midline structures...
removing 4 vertex label from ripped group
removing 3 vertex label from ripped group
removing 1 vertex label from ripped group
removing 3 vertex label from ripped group
removing 2 vertex label from ripped group
removing 2 vertex label from ripped group
removing 1 vertex label from ripped group
mean border=86.8, 758 (260) missing vertices, mean dist -0.1 [0.3 (%56.3)->0.2 (%43.7))]
%78 local maxima, %15 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=0.2, host=c139., nav=0, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
writing white matter surface to /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white.preaparc...
writing smoothed curvature to lh.curv
000: dt: 0.0000, sse=1041210.9, rms=3.414
rms = 3.44, time step reduction 1 of 3 to 0.250...
044: dt: 0.2500, sse=982799.6, rms=3.110 (8.893%)
045: dt: 0.2500, sse=964143.3, rms=2.949 (5.180%)
rms = 2.95, time step reduction 2 of 3 to 0.125...
046: dt: 0.2500, sse=965123.3, rms=2.948 (0.024%)
rms = 2.91, time step reduction 3 of 3 to 0.062...
047: dt: 0.1250, sse=947558.7, rms=2.909 (1.332%)
positioning took 0.8 minutes
generating cortex label...
14 non-cortical segments detected
only using segment with 7583 vertices
erasing segment 1 (vno[0] = 54042)
erasing segment 2 (vno[0] = 97878)
erasing segment 3 (vno[0] = 99270)
erasing segment 4 (vno[0] = 100401)
erasing segment 5 (vno[0] = 101603)
erasing segment 6 (vno[0] = 102754)
erasing segment 7 (vno[0] = 103956)
erasing segment 8 (vno[0] = 104006)
erasing segment 9 (vno[0] = 104019)
erasing segment 10 (vno[0] = 104970)
erasing segment 11 (vno[0] = 104992)
erasing segment 12 (vno[0] = 119990)
erasing segment 13 (vno[0] = 143995)
writing cortex label to /study2/emowrap/data/freesurfer/subjects/066/label/lh.cortex.label...
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/lh.curv
writing smoothed area to lh.area
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/lh.area
vertex spacing 0.90 +- 0.33 (0.02-->12.24) (max @ vno 142176 --> 142177)
face area 0.33 +- 0.22 (0.00-->15.82)
refinement took 11.2 minutes
#--------------------------------------------
#@# Make White Surf rh Fri Jan 10 16:39:15 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 066 rh

using white.preaparc as white matter name...
only generating white matter surface
using aseg volume ../mri/aseg.presurf to prevent surfaces crossing the midline
not using aparc to prevent surfaces crossing the midline
INFO: assuming MGZ format for volumes.
using brain.finalsurfs as T1 volume...
$Id: mris_make_surfaces.c,v 1.164.2.4 2016/12/13 22:26:32 zkaufman Exp $
$Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/filled.mgz...
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/brain.finalsurfs.mgz...
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/../mri/aseg.presurf.mgz...
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/wm.mgz...
30313 bright wm thresholded.
4930 bright non-wm voxels segmented.
reading original surface position from /study2/emowrap/data/freesurfer/subjects/066/surf/rh.orig...
computing class statistics...
border white:    294007 voxels (1.75%)
border gray      332888 voxels (1.98%)
WM (96.0): 96.8 +- 9.0 [70.0 --> 110.0]
GM (70.0) : 68.3 +- 12.7 [30.0 --> 110.0]
setting MIN_GRAY_AT_WHITE_BORDER to 54.3 (was 70)
setting MAX_BORDER_WHITE to 111.0 (was 105)
setting MIN_BORDER_WHITE to 67.0 (was 85)
setting MAX_CSF to 41.6 (was 40)
setting MAX_GRAY to 93.0 (was 95)
setting MAX_GRAY_AT_CSF_BORDER to 54.3 (was 75)
setting MIN_GRAY_AT_CSF_BORDER to 28.9 (was 40)
repositioning cortical surface to gray/white boundary
smoothing T1 volume with sigma = 2.000
vertex spacing 0.82 +- 0.23 (0.01-->5.61) (max @ vno 518 --> 149435)
face area 0.28 +- 0.13 (0.00-->7.71)
mean absolute distance = 0.88 +- 1.17
4512 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
using class modes intead of means, discounting robust sigmas....
intensity peaks found at WM=102+-8.7,    GM=67+-10.4
mean inside = 91.7, mean outside = 71.3
smoothing surface for 5 iterations...
inhibiting deformation at non-cortical midline structures...
removing 2 vertex label from ripped group
removing 2 vertex label from ripped group
mean border=79.4, 300 (300) missing vertices, mean dist 0.1 [1.0 (%38.6)->0.8 (%61.4))]
%40 local maxima, %55 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=2.0, host=c139., nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
complete_dist_mat 0
rms 0
smooth_averages 0
remove_neg 0
ico_order 0
which_surface 0
target_radius 0.000000
nfields 0
scale 0.000000
desired_rms_height 0.000000
momentum 0.000000
nbhd_size 0
max_nbrs 0
niterations 25
nsurfaces 0
SURFACES 3
flags 0 (0)
use curv 0
no sulc 0
no rigid align 0
mris->nsize 2
mris->hemisphere 1
randomSeed 0

smoothing T1 volume with sigma = 1.000
vertex spacing 0.91 +- 0.26 (0.07-->5.49) (max @ vno 518 --> 149435)
face area 0.28 +- 0.14 (0.00-->6.02)
mean absolute distance = 0.49 +- 0.78
5579 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
000: dt: 0.0000, sse=5065825.0, rms=12.308
001: dt: 0.5000, sse=2788515.0, rms=8.666 (29.593%)
002: dt: 0.5000, sse=1790370.1, rms=6.391 (26.246%)
003: dt: 0.5000, sse=1353308.6, rms=5.073 (20.632%)
004: dt: 0.5000, sse=1165988.8, rms=4.328 (14.683%)
005: dt: 0.5000, sse=1058028.2, rms=3.947 (8.799%)
006: dt: 0.5000, sse=1022315.1, rms=3.775 (4.369%)
rms = 3.73, time step reduction 1 of 3 to 0.250...
007: dt: 0.5000, sse=1015620.2, rms=3.728 (1.249%)
008: dt: 0.2500, sse=816032.6, rms=2.610 (29.975%)
009: dt: 0.2500, sse=774647.0, rms=2.293 (12.150%)
010: dt: 0.2500, sse=759656.4, rms=2.194 (4.309%)
011: dt: 0.2500, sse=757175.5, rms=2.139 (2.499%)
rms = 2.09, time step reduction 2 of 3 to 0.125...
012: dt: 0.2500, sse=750146.2, rms=2.090 (2.327%)
013: dt: 0.1250, sse=733236.4, rms=1.965 (5.947%)
rms = 1.95, time step reduction 3 of 3 to 0.062...
014: dt: 0.1250, sse=728943.2, rms=1.953 (0.638%)
positioning took 2.5 minutes
inhibiting deformation at non-cortical midline structures...
removing 2 vertex label from ripped group
removing 4 vertex label from ripped group
removing 3 vertex label from ripped group
removing 4 vertex label from ripped group
mean border=82.9, 270 (100) missing vertices, mean dist -0.3 [0.6 (%69.2)->0.3 (%30.8))]
%59 local maxima, %37 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=1.0, host=c139., nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 0.500
vertex spacing 0.89 +- 0.26 (0.05-->5.41) (max @ vno 518 --> 149435)
face area 0.34 +- 0.17 (0.00-->6.57)
mean absolute distance = 0.35 +- 0.52
4942 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
000: dt: 0.0000, sse=1561074.5, rms=5.267
015: dt: 0.5000, sse=1159264.6, rms=3.643 (30.842%)
016: dt: 0.5000, sse=1119141.1, rms=3.547 (2.622%)
017: dt: 0.5000, sse=1119178.1, rms=3.455 (2.616%)
rms = 3.60, time step reduction 1 of 3 to 0.250...
018: dt: 0.2500, sse=932546.1, rms=2.457 (28.871%)
019: dt: 0.2500, sse=885381.7, rms=1.986 (19.184%)
020: dt: 0.2500, sse=871182.4, rms=1.830 (7.829%)
021: dt: 0.2500, sse=865008.9, rms=1.761 (3.808%)
rms = 1.73, time step reduction 2 of 3 to 0.125...
022: dt: 0.2500, sse=864625.9, rms=1.731 (1.693%)
023: dt: 0.1250, sse=839974.0, rms=1.624 (6.149%)
rms = 1.61, time step reduction 3 of 3 to 0.062...
024: dt: 0.1250, sse=841468.0, rms=1.614 (0.659%)
positioning took 1.8 minutes
inhibiting deformation at non-cortical midline structures...
removing 4 vertex label from ripped group
removing 3 vertex label from ripped group
removing 1 vertex label from ripped group
removing 4 vertex label from ripped group
mean border=85.5, 277 (63) missing vertices, mean dist -0.2 [0.4 (%68.4)->0.2 (%31.6))]
%75 local maxima, %20 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=0.5, host=c139., nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 0.250
vertex spacing 0.88 +- 0.26 (0.03-->5.34) (max @ vno 518 --> 149435)
face area 0.33 +- 0.17 (0.00-->5.86)
mean absolute distance = 0.27 +- 0.42
4780 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
000: dt: 0.0000, sse=1196212.0, rms=3.970
025: dt: 0.5000, sse=1030228.9, rms=3.061 (22.894%)
rms = 3.28, time step reduction 1 of 3 to 0.250...
026: dt: 0.2500, sse=882667.3, rms=2.185 (28.619%)
027: dt: 0.2500, sse=845415.4, rms=1.752 (19.815%)
028: dt: 0.2500, sse=824094.7, rms=1.619 (7.566%)
rms = 1.58, time step reduction 2 of 3 to 0.125...
029: dt: 0.2500, sse=815409.8, rms=1.576 (2.688%)
030: dt: 0.1250, sse=803513.5, rms=1.471 (6.648%)
rms = 1.45, time step reduction 3 of 3 to 0.062...
031: dt: 0.1250, sse=797239.1, rms=1.447 (1.642%)
positioning took 1.3 minutes
inhibiting deformation at non-cortical midline structures...
removing 2 vertex label from ripped group
removing 3 vertex label from ripped group
removing 3 vertex label from ripped group
removing 1 vertex label from ripped group
removing 2 vertex label from ripped group
mean border=86.4, 340 (48) missing vertices, mean dist -0.1 [0.3 (%55.7)->0.2 (%44.3))]
%81 local maxima, %15 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=0.2, host=c139., nav=0, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
writing white matter surface to /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white.preaparc...
writing smoothed curvature to rh.curv
000: dt: 0.0000, sse=850923.6, rms=2.055
rms = 2.18, time step reduction 1 of 3 to 0.250...
032: dt: 0.2500, sse=792607.7, rms=1.514 (26.336%)
033: dt: 0.2500, sse=784578.5, rms=1.214 (19.793%)
rms = 1.26, time step reduction 2 of 3 to 0.125...
rms = 1.19, time step reduction 3 of 3 to 0.062...
034: dt: 0.1250, sse=770150.1, rms=1.185 (2.369%)
positioning took 0.8 minutes
generating cortex label...
13 non-cortical segments detected
only using segment with 7052 vertices
erasing segment 1 (vno[0] = 49173)
erasing segment 2 (vno[0] = 59203)
erasing segment 3 (vno[0] = 60472)
erasing segment 4 (vno[0] = 71777)
erasing segment 5 (vno[0] = 85718)
erasing segment 6 (vno[0] = 104704)
erasing segment 7 (vno[0] = 105660)
erasing segment 8 (vno[0] = 105704)
erasing segment 9 (vno[0] = 110791)
erasing segment 10 (vno[0] = 113383)
erasing segment 11 (vno[0] = 116667)
erasing segment 12 (vno[0] = 150661)
writing cortex label to /study2/emowrap/data/freesurfer/subjects/066/label/rh.cortex.label...
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/rh.curv
writing smoothed area to rh.area
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/rh.area
vertex spacing 0.89 +- 0.26 (0.01-->5.32) (max @ vno 518 --> 149435)
face area 0.33 +- 0.17 (0.00-->5.77)
refinement took 9.6 minutes
#--------------------------------------------
#@# Smooth2 lh Fri Jan 10 16:48:54 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_smooth -n 3 -nw -seed 1234 ../surf/lh.white.preaparc ../surf/lh.smoothwm

smoothing for 3 iterations
setting seed for random number generator to 1234
smoothing surface tessellation for 3 iterations...
smoothing complete - recomputing first and second fundamental forms...
#--------------------------------------------
#@# Smooth2 rh Fri Jan 10 16:49:04 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_smooth -n 3 -nw -seed 1234 ../surf/rh.white.preaparc ../surf/rh.smoothwm

smoothing for 3 iterations
setting seed for random number generator to 1234
smoothing surface tessellation for 3 iterations...
smoothing complete - recomputing first and second fundamental forms...
#--------------------------------------------
#@# Inflation2 lh Fri Jan 10 16:49:15 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_inflate -rusage /study2/emowrap/data/freesurfer/subjects/066/touch/rusage.mris_inflate.lh.dat ../surf/lh.smoothwm ../surf/lh.inflated

Reading ../surf/lh.smoothwm
avg radius = 48.1 mm, total surface area = 87451 mm^2
writing inflated surface to ../surf/lh.inflated
writing sulcal depths to ../surf/lh.sulc

step 000: RMS=0.180 (target=0.015)
step 005: RMS=0.129 (target=0.015)   ep 010: RMS=0.100 (target=0.015)   
st015: RMS=0.084 (target=0.015)   
step : RMS=0.072 (target=0.015)   
step 025MS=0.061 (target=0.015)   
step 030: R0.052 (target=0.015)   
step 035: RMS=43 (target=0.015)   
step 040: RMS=0.0(target=0.015)   
step 045: RMS=0.033 rget=0.015)   
step 050: RMS=0.031 (tat=0.015)   
step 055: RMS=0.028 (targe.015)   
step 060: RMS=0.026 (target=05)   
inflation complete.
inflation took 1.0 minutes
mris_inflate utimesec    57.197303
mris_inflate stimesec    0.283006
mris_inflate ru_maxrss   186248
mris_inflate ru_ixrss    0
mris_inflate ru_idrss    0
mris_inflate ru_isrss    0
mris_inflate ru_minflt   146615
mris_inflate ru_majflt   0
mris_inflate ru_nswap    0
mris_inflate ru_inblock  160
mris_inflate ru_oublock  11328
mris_inflate ru_msgsnd   0
mris_inflate ru_msgrcv   0
mris_inflate ru_nsignals 0
mris_inflate ru_nvcsw    310
mris_inflate ru_nivcsw   35
#--------------------------------------------
#@# Inflation2 rh Fri Jan 10 16:50:13 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_inflate -rusage /study2/emowrap/data/freesurfer/subjects/066/touch/rusage.mris_inflate.rh.dat ../surf/rh.smoothwm ../surf/rh.inflated

Reading ../surf/rh.smoothwm
avg radius = 48.7 mm, total surface area = 89816 mm^2
writing inflated surface to ../surf/rh.inflated
writing sulcal depths to ../surf/rh.sulc

step 000: RMS=0.179 (target=0.015)
step 005: RMS=0.129 (target=0.015)   ep 010: RMS=0.099 (target=0.015)   
st015: RMS=0.083 (target=0.015)   
step : RMS=0.070 (target=0.015)   
step 025MS=0.059 (target=0.015)   
step 030: R0.050 (target=0.015)   
step 035: RMS=42 (target=0.015)   
step 040: RMS=0.0(target=0.015)   
step 045: RMS=0.032 rget=0.015)   
step 050: RMS=0.028 (tat=0.015)   
step 055: RMS=0.026 (targe.015)   
step 060: RMS=0.025 (target=05)   
inflation complete.
inflation took 0.9 minutes
mris_inflate utimesec    54.524081
mris_inflate stimesec    0.303900
mris_inflate ru_maxrss   194516
mris_inflate ru_ixrss    0
mris_inflate ru_idrss    0
mris_inflate ru_isrss    0
mris_inflate ru_minflt   149871
mris_inflate ru_majflt   0
mris_inflate ru_nswap    0
mris_inflate ru_inblock  160
mris_inflate ru_oublock  11840
mris_inflate ru_msgsnd   0
mris_inflate ru_msgrcv   0
mris_inflate ru_nsignals 0
mris_inflate ru_nvcsw    325
mris_inflate ru_nivcsw   1209
#--------------------------------------------
#@# Curv .H and .K lh Fri Jan 10 16:51:08 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/surf

 mris_curvature -w lh.white.preaparc

total integrated curvature = 26.140*4pi (328.484) --> -25 handles
ICI = 220.3, FI = 2133.1, variation=33821.544
writing Gaussian curvature to ./lh.white.preaparc.K...done.
writing mean curvature to ./lh.white.preaparc.H...done.
rm -f lh.white.H
ln -s lh.white.preaparc.H lh.white.H
rm -f lh.white.K
ln -s lh.white.preaparc.K lh.white.K

 mris_curvature -thresh .999 -n -a 5 -w -distances 10 10 lh.inflated

normalizing curvature values.
averaging curvature patterns 5 times.
sampling 10 neighbors out to a distance of 10 mm
165 vertices thresholded to be in k1 ~ [-0.32 0.32], k2 ~ [-0.14 0.08]
total integrated curvature = 0.492*4pi (6.186) --> 1 handles
ICI = 1.5, FI = 9.9, variation=170.226
139 vertices thresholded to be in [-0.03 0.02]
writing Gaussian curvature to ./lh.inflated.K...thresholding curvature at 99.90% level
curvature mean = 0.000, std = 0.001
129 vertices thresholded to be in [-0.16 0.11]
done.
writing mean curvature to ./lh.inflated.H...curvature mean = -0.016, std = 0.023
done.
#--------------------------------------------
#@# Curv .H and .K rh Fri Jan 10 16:53:16 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/surf

 mris_curvature -w rh.white.preaparc

total integrated curvature = 20.419*4pi (256.594) --> -19 handles
ICI = 222.6, FI = 2156.2, variation=34300.622
writing Gaussian curvature to ./rh.white.preaparc.K...done.
writing mean curvature to ./rh.white.preaparc.H...done.
rm -f rh.white.H
ln -s rh.white.preaparc.H rh.white.H
rm -f rh.white.K
ln -s rh.white.preaparc.K rh.white.K

 mris_curvature -thresh .999 -n -a 5 -w -distances 10 10 rh.inflated

normalizing curvature values.
averaging curvature patterns 5 times.
sampling 10 neighbors out to a distance of 10 mm
211 vertices thresholded to be in k1 ~ [-0.24 0.31], k2 ~ [-0.11 0.07]
total integrated curvature = 0.491*4pi (6.164) --> 1 handles
ICI = 1.5, FI = 9.1, variation=158.549
134 vertices thresholded to be in [-0.01 0.02]
writing Gaussian curvature to ./rh.inflated.K...thresholding curvature at 99.90% level
curvature mean = 0.000, std = 0.001
153 vertices thresholded to be in [-0.14 0.14]
done.
writing mean curvature to ./rh.inflated.H...curvature mean = -0.016, std = 0.021
done.

#-----------------------------------------
#@# Curvature Stats lh Fri Jan 10 16:55:34 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/surf

 mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/lh.curv.stats -F smoothwm 066 lh curv sulc

             Toggling save flag on curvature files                       [ ok ]
                 Outputting results using filestem   [ ../stats/lh.curv.stats ]
             Toggling save flag on curvature files                       [ ok ]
                                   Setting surface          [ 066/lh.smoothwm ]
                                Reading surface...                       [ ok ]
                                   Setting texture                     [ curv ]
                                Reading texture...                       [ ok ]
                                   Setting texture                     [ sulc ]
                                Reading texture...Gb_filter = 0
                       [ ok ]
      Calculating Discrete Principal Curvatures...
   Determining geometric order for vertex faces... [####################] [ ok ]
                      Determining KH curvatures... [####################] [ ok ]
                    Determining k1k2 curvatures... [####################] [ ok ]
                                   deltaViolations                      [ 266 ]
Gb_filter = 0

#-----------------------------------------
#@# Curvature Stats rh Fri Jan 10 16:55:42 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/surf

 mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/rh.curv.stats -F smoothwm 066 rh curv sulc

             Toggling save flag on curvature files                       [ ok ]
                 Outputting results using filestem   [ ../stats/rh.curv.stats ]
             Toggling save flag on curvature files                       [ ok ]
                                   Setting surface          [ 066/rh.smoothwm ]
                                Reading surface...                       [ ok ]
                                   Setting texture                     [ curv ]
                                Reading texture...                       [ ok ]
                                   Setting texture                     [ sulc ]
                                Reading texture...Gb_filter = 0
                       [ ok ]
      Calculating Discrete Principal Curvatures...
   Determining geometric order for vertex faces... [####################] [ ok ]
                      Determining KH curvatures... [####################] [ ok ]
                    Determining k1k2 curvatures... [####################] [ ok ]
                                   deltaViolations                      [ 329 ]
Gb_filter = 0

WARN:    S lookup   min:                          -0.376210
WARN:    S explicit min:                          0.000000	vertex = 51
#--------------------------------------------
#@# Sphere lh Fri Jan 10 16:55:49 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_sphere -rusage /study2/emowrap/data/freesurfer/subjects/066/touch/rusage.mris_sphere.lh.dat -seed 1234 ../surf/lh.inflated ../surf/lh.sphere

setting seed for random number genererator to 1234
$Id: mris_sphere.c,v 1.61 2016/01/20 23:42:15 greve Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading original vertex positions...
unfolding cortex into spherical form...
surface projected - minimizing metric distortion...

== Number of threads available to mris_sphere for OpenMP = 1 ==
scaling brain by 0.277...
MRISunfold() max_passes = 1 -------
tol=5.0e-01, sigma=0.0, host=c139., nav=1024, nbrs=2, l_area=1.000, l_dist=1.000
using quadratic fit line minimization
complete_dist_mat 0
rms 0
smooth_averages 0
remove_neg 0
ico_order 0
which_surface 0
target_radius 0.000000
nfields 0
scale 1.000000
desired_rms_height -1.000000
momentum 0.900000
nbhd_size 7
max_nbrs 8
niterations 25
nsurfaces 0
SURFACES 3
flags 0 (0)
use curv 0
no sulc 0
no rigid align 0
mris->nsize 2
mris->hemisphere 0
randomSeed 1234

--------------------
  mrisRemoveNegativeArea()
pass 1: epoch 1 of 3 starting distance error %21.87
pass 1: epoch 2 of 3 starting distance error %21.81
unfolding complete - removing small folds...
starting distance error %21.47
removing remaining folds...
final distance error %21.49
MRISunfold() return, current seed 1234
-01: dt=0.0000, 551 negative triangles
204: dt=0.9900, 551 negative triangles
205: dt=0.9900, 345 negative triangles
206: dt=0.9900, 259 negative triangles
207: dt=0.9900, 244 negative triangles
208: dt=0.9900, 213 negative triangles
209: dt=0.9900, 190 negative triangles
210: dt=0.9900, 148 negative triangles
211: dt=0.9900, 131 negative triangles
212: dt=0.9900, 131 negative triangles
213: dt=0.9900, 101 negative triangles
214: dt=0.9900, 96 negative triangles
215: dt=0.9900, 95 negative triangles
216: dt=0.9900, 70 negative triangles
217: dt=0.9900, 65 negative triangles
218: dt=0.9900, 54 negative triangles
219: dt=0.9900, 49 negative triangles
220: dt=0.9900, 51 negative triangles
221: dt=0.9900, 34 negative triangles
222: dt=0.9900, 32 negative triangles
223: dt=0.9900, 27 negative triangles
224: dt=0.9900, 18 negative triangles
225: dt=0.9900, 18 negative triangles
226: dt=0.9900, 13 negative triangles
227: dt=0.9900, 15 negative triangles
228: dt=0.9900, 13 negative triangles
229: dt=0.9900, 7 negative triangles
230: dt=0.9900, 8 negative triangles
231: dt=0.9900, 3 negative triangles
232: dt=0.9900, 1 negative triangles
233: dt=0.9900, 3 negative triangles
writing spherical brain to ../surf/lh.sphere
spherical transformation took 1.21 hours
mris_sphere utimesec    4356.679402
mris_sphere stimesec    7.767834
mris_sphere ru_maxrss   256020
mris_sphere ru_ixrss    0
mris_sphere ru_idrss    0
mris_sphere ru_isrss    0
mris_sphere ru_minflt   5039458
mris_sphere ru_majflt   0
mris_sphere ru_nswap    0
mris_sphere ru_inblock  0
mris_sphere ru_oublock  10192
mris_sphere ru_msgsnd   0
mris_sphere ru_msgrcv   0
mris_sphere ru_nsignals 0
mris_sphere ru_nvcsw    146
mris_sphere ru_nivcsw   104762
FSRUNTIME@ mris_sphere  1.2130 hours 1 threads
#--------------------------------------------
#@# Sphere rh Fri Jan 10 18:08:36 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_sphere -rusage /study2/emowrap/data/freesurfer/subjects/066/touch/rusage.mris_sphere.rh.dat -seed 1234 ../surf/rh.inflated ../surf/rh.sphere

setting seed for random number genererator to 1234
$Id: mris_sphere.c,v 1.61 2016/01/20 23:42:15 greve Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading original vertex positions...
unfolding cortex into spherical form...
surface projected - minimizing metric distortion...

== Number of threads available to mris_sphere for OpenMP = 1 ==
scaling brain by 0.268...
MRISunfold() max_passes = 1 -------
tol=5.0e-01, sigma=0.0, host=c139., nav=1024, nbrs=2, l_area=1.000, l_dist=1.000
using quadratic fit line minimization
complete_dist_mat 0
rms 0
smooth_averages 0
remove_neg 0
ico_order 0
which_surface 0
target_radius 0.000000
nfields 0
scale 1.000000
desired_rms_height -1.000000
momentum 0.900000
nbhd_size 7
max_nbrs 8
niterations 25
nsurfaces 0
SURFACES 3
flags 0 (0)
use curv 0
no sulc 0
no rigid align 0
mris->nsize 2
mris->hemisphere 1
randomSeed 1234

--------------------
  mrisRemoveNegativeArea()
pass 1: epoch 1 of 3 starting distance error %20.97
pass 1: epoch 2 of 3 starting distance error %20.94
unfolding complete - removing small folds...
starting distance error %20.84
removing remaining folds...
final distance error %20.86
MRISunfold() return, current seed 1234
-01: dt=0.0000, 352 negative triangles
188: dt=0.9900, 352 negative triangles
189: dt=0.9900, 137 negative triangles
190: dt=0.9900, 102 negative triangles
191: dt=0.9900, 95 negative triangles
192: dt=0.9900, 85 negative triangles
193: dt=0.9900, 89 negative triangles
194: dt=0.9900, 78 negative triangles
195: dt=0.9900, 70 negative triangles
196: dt=0.9900, 58 negative triangles
197: dt=0.9900, 63 negative triangles
198: dt=0.9900, 60 negative triangles
199: dt=0.9900, 56 negative triangles
200: dt=0.9900, 45 negative triangles
201: dt=0.9900, 43 negative triangles
202: dt=0.9900, 33 negative triangles
203: dt=0.9900, 29 negative triangles
204: dt=0.9900, 28 negative triangles
205: dt=0.9900, 24 negative triangles
206: dt=0.9900, 21 negative triangles
207: dt=0.9900, 19 negative triangles
208: dt=0.9900, 17 negative triangles
209: dt=0.9900, 18 negative triangles
210: dt=0.9900, 14 negative triangles
211: dt=0.9900, 12 negative triangles
212: dt=0.9900, 16 negative triangles
213: dt=0.9900, 7 negative triangles
214: dt=0.9900, 7 negative triangles
215: dt=0.9900, 3 negative triangles
216: dt=0.9900, 5 negative triangles
217: dt=0.9900, 2 negative triangles
218: dt=0.9900, 1 negative triangles
writing spherical brain to ../surf/rh.sphere
spherical transformation took 1.19 hours
mris_sphere utimesec    4260.165886
mris_sphere stimesec    7.766627
mris_sphere ru_maxrss   267544
mris_sphere ru_ixrss    0
mris_sphere ru_idrss    0
mris_sphere ru_isrss    0
mris_sphere ru_minflt   5652075
mris_sphere ru_majflt   0
mris_sphere ru_nswap    0
mris_sphere ru_inblock  0
mris_sphere ru_oublock  10656
mris_sphere ru_msgsnd   0
mris_sphere ru_msgrcv   0
mris_sphere ru_nsignals 0
mris_sphere ru_nvcsw    223
mris_sphere ru_nivcsw   31166
FSRUNTIME@ mris_sphere  1.1866 hours 1 threads
#--------------------------------------------
#@# Surf Reg lh Fri Jan 10 19:19:48 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_register -curv -rusage /study2/emowrap/data/freesurfer/subjects/066/touch/rusage.mris_register.lh.dat ../surf/lh.sphere /apps/x86_64_sci7/freesurfer-6.0.0/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/lh.sphere.reg

using smoothwm curvature for final alignment

cwd /study2/emowrap/data/freesurfer/subjects/066/scripts
cmdline mris_register -curv -rusage /study2/emowrap/data/freesurfer/subjects/066/touch/rusage.mris_register.lh.dat ../surf/lh.sphere /apps/x86_64_sci7/freesurfer-6.0.0/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/lh.sphere.reg

0 inflated.H
1 sulc
2 smoothwm (computed)
$Id: mris_register.c,v 1.63 2016/01/20 23:43:04 greve Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading surface from ../surf/lh.sphere...
reading template parameterization from /apps/x86_64_sci7/freesurfer-6.0.0/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif...
MRISregister() -------
max_passes = 4
min_degrees = 0.500000
max_degrees = 64.000000
nangles = 8
tol=5.0e-01, sigma=0.0, host=c139., nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=1.000, l_dist=5.000
using quadratic fit line minimization
complete_dist_mat 0
rms 0
smooth_averages 0
remove_neg 0
ico_order 0
which_surface 0
target_radius 0.000000
nfields 0
scale 0.000000
desired_rms_height -1.000000
momentum 0.950000
nbhd_size -10
max_nbrs 10
niterations 25
nsurfaces 0
SURFACES 3
flags 16 (10)
use curv 16
no sulc 0
no rigid align 0
mris->nsize 1
mris->hemisphere 0
randomSeed 0

tol=5.0e-01, sigma=0.0, host=c139., nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=1.000, l_dist=5.000
using quadratic fit line minimization
--------------------
1 Reading lh.sulc
curvature mean = 0.000, std = 5.573
curvature mean = 0.055, std = 0.827
curvature mean = 0.029, std = 0.863
Starting MRISrigidBodyAlignGlobal()
  d=64.00 min @ (0.00, -16.00, 0.00) sse = 364202.6, tmin=1.3897
  d=32.00 min @ (16.00, 8.00, 0.00) sse = 307301.0, tmin=2.7977
  d=16.00 min @ (-8.00, -4.00, 4.00) sse = 288118.0, tmin=4.2248
  d=8.00 min @ (4.00, 2.00, 0.00) sse = 277863.0, tmin=5.6818
  d=4.00 min @ (-1.00, 0.00, 0.00) sse = 277429.8, tmin=7.1625
  d=2.00 min @ (0.00, -0.50, 0.00) sse = 277289.4, tmin=8.6500
  d=1.00 min @ (0.25, 0.25, -0.25) sse = 277099.8, tmin=10.1175
  d=0.50 min @ (0.00, 0.00, 0.12) sse = 277090.2, tmin=11.5802
tol=1.0e+00, sigma=0.5, host=c139., nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=0.050, l_spring=0.500, l_dist=5.000
using quadratic fit line minimization
MRISrigidBodyAlignGlobal() done  11.58 min
curvature mean = 0.006, std = 0.827
curvature mean = 0.012, std = 0.944
curvature mean = 0.000, std = 0.835
curvature mean = 0.004, std = 0.975
curvature mean = -0.001, std = 0.836
curvature mean = 0.001, std = 0.988
2 Reading smoothwm
curvature mean = -0.038, std = 0.346
curvature mean = 0.039, std = 0.247
curvature mean = 0.077, std = 0.285
curvature mean = 0.031, std = 0.309
curvature mean = 0.042, std = 0.442
curvature mean = 0.030, std = 0.337
curvature mean = 0.024, std = 0.568
curvature mean = 0.029, std = 0.348
curvature mean = 0.009, std = 0.681
MRISregister() return, current seed 0
-01: dt=0.0000, 341 negative triangles
126: dt=0.9900, 341 negative triangles
expanding nbhd size to 1
127: dt=0.9900, 357 negative triangles
128: dt=0.9900, 285 negative triangles
129: dt=0.9900, 257 negative triangles
130: dt=0.9900, 252 negative triangles
131: dt=0.9900, 241 negative triangles
132: dt=0.9900, 232 negative triangles
133: dt=0.9900, 212 negative triangles
134: dt=0.9900, 208 negative triangles
135: dt=0.9900, 186 negative triangles
136: dt=0.9900, 177 negative triangles
137: dt=0.9900, 169 negative triangles
138: dt=0.9900, 158 negative triangles
139: dt=0.9900, 148 negative triangles
140: dt=0.9900, 142 negative triangles
141: dt=0.9900, 136 negative triangles
142: dt=0.9900, 122 negative triangles
143: dt=0.9900, 121 negative triangles
144: dt=0.9900, 118 negative triangles
145: dt=0.9900, 100 negative triangles
146: dt=0.9900, 84 negative triangles
147: dt=0.9900, 75 negative triangles
148: dt=0.9900, 80 negative triangles
149: dt=0.9900, 76 negative triangles
150: dt=0.9900, 73 negative triangles
151: dt=0.9900, 68 negative triangles
152: dt=0.9900, 74 negative triangles
153: dt=0.9900, 67 negative triangles
154: dt=0.9900, 68 negative triangles
155: dt=0.9900, 60 negative triangles
156: dt=0.9900, 57 negative triangles
157: dt=0.9900, 58 negative triangles
158: dt=0.9900, 55 negative triangles
159: dt=0.9900, 56 negative triangles
160: dt=0.9900, 52 negative triangles
161: dt=0.9900, 50 negative triangles
162: dt=0.9900, 49 negative triangles
163: dt=0.9900, 45 negative triangles
164: dt=0.9900, 46 negative triangles
165: dt=0.9900, 40 negative triangles
166: dt=0.9900, 37 negative triangles
167: dt=0.9900, 37 negative triangles
168: dt=0.9900, 34 negative triangles
169: dt=0.9900, 36 negative triangles
170: dt=0.9900, 34 negative triangles
171: dt=0.9900, 30 negative triangles
172: dt=0.9900, 33 negative triangles
173: dt=0.9900, 35 negative triangles
174: dt=0.9900, 32 negative triangles
175: dt=0.9900, 31 negative triangles
176: dt=0.9900, 30 negative triangles
177: dt=0.9900, 28 negative triangles
178: dt=0.9900, 24 negative triangles
179: dt=0.9900, 21 negative triangles
180: dt=0.9900, 19 negative triangles
181: dt=0.9900, 19 negative triangles
182: dt=0.9900, 18 negative triangles
183: dt=0.9900, 17 negative triangles
184: dt=0.9900, 12 negative triangles
185: dt=0.9900, 9 negative triangles
186: dt=0.9900, 8 negative triangles
187: dt=0.9900, 18 negative triangles
188: dt=0.9900, 12 negative triangles
189: dt=0.9900, 9 negative triangles
190: dt=0.9900, 9 negative triangles
191: dt=0.9900, 2 negative triangles
192: dt=0.9900, 2 negative triangles
193: dt=0.9900, 3 negative triangles
194: dt=0.9900, 3 negative triangles
195: dt=0.9900, 3 negative triangles
196: dt=0.9900, 1 negative triangles
197: dt=0.9900, 2 negative triangles
198: dt=0.9900, 1 negative triangles
199: dt=0.9900, 1 negative triangles
200: dt=0.9900, 1 negative triangles
writing registered surface to ../surf/lh.sphere.reg...
registration took 1.40 hours
mris_register utimesec    5037.674415
mris_register stimesec    4.114006
mris_register ru_maxrss   240500
mris_register ru_ixrss    0
mris_register ru_idrss    0
mris_register ru_isrss    0
mris_register ru_minflt   2483305
mris_register ru_majflt   0
mris_register ru_nswap    0
mris_register ru_inblock  0
mris_register ru_oublock  10192
mris_register ru_msgsnd   0
mris_register ru_msgrcv   0
mris_register ru_nsignals 0
mris_register ru_nvcsw    214
mris_register ru_nivcsw   20620
FSRUNTIME@ mris_register  1.4023 hours 1 threads
#--------------------------------------------
#@# Surf Reg rh Fri Jan 10 20:43:56 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_register -curv -rusage /study2/emowrap/data/freesurfer/subjects/066/touch/rusage.mris_register.rh.dat ../surf/rh.sphere /apps/x86_64_sci7/freesurfer-6.0.0/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/rh.sphere.reg

using smoothwm curvature for final alignment

cwd /study2/emowrap/data/freesurfer/subjects/066/scripts
cmdline mris_register -curv -rusage /study2/emowrap/data/freesurfer/subjects/066/touch/rusage.mris_register.rh.dat ../surf/rh.sphere /apps/x86_64_sci7/freesurfer-6.0.0/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/rh.sphere.reg

0 inflated.H
1 sulc
2 smoothwm (computed)
$Id: mris_register.c,v 1.63 2016/01/20 23:43:04 greve Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading surface from ../surf/rh.sphere...
reading template parameterization from /apps/x86_64_sci7/freesurfer-6.0.0/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif...
MRISregister() -------
max_passes = 4
min_degrees = 0.500000
max_degrees = 64.000000
nangles = 8
tol=5.0e-01, sigma=0.0, host=c139., nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=1.000, l_dist=5.000
using quadratic fit line minimization
complete_dist_mat 0
rms 0
smooth_averages 0
remove_neg 0
ico_order 0
which_surface 0
target_radius 0.000000
nfields 0
scale 0.000000
desired_rms_height -1.000000
momentum 0.950000
nbhd_size -10
max_nbrs 10
niterations 25
nsurfaces 0
SURFACES 3
flags 16 (10)
use curv 16
no sulc 0
no rigid align 0
mris->nsize 1
mris->hemisphere 1
randomSeed 0

tol=5.0e-01, sigma=0.0, host=c139., nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=1.000, l_dist=5.000
using quadratic fit line minimization
--------------------
1 Reading rh.sulc
curvature mean = 0.000, std = 5.569
curvature mean = 0.040, std = 0.808
curvature mean = 0.025, std = 0.853
Starting MRISrigidBodyAlignGlobal()
  d=64.00 min @ (16.00, -16.00, 0.00) sse = 350391.0, tmin=1.4809
  d=32.00 min @ (0.00, 8.00, 0.00) sse = 287822.3, tmin=2.9945
  d=16.00 min @ (-4.00, -4.00, 4.00) sse = 259135.2, tmin=4.5760
  d=8.00 min @ (2.00, 2.00, 0.00) sse = 247712.5, tmin=6.1686
  d=4.00 min @ (0.00, 0.00, -1.00) sse = 245363.1, tmin=7.7564
  d=1.00 min @ (-0.25, 0.00, 0.00) sse = 245228.0, tmin=10.9577
  d=0.50 min @ (0.00, -0.12, 0.00) sse = 245198.2, tmin=12.5175
tol=1.0e+00, sigma=0.5, host=c139., nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=0.050, l_spring=0.500, l_dist=5.000
using quadratic fit line minimization
MRISrigidBodyAlignGlobal() done  12.52 min
curvature mean = 0.001, std = 0.815
curvature mean = 0.008, std = 0.945
curvature mean = -0.005, std = 0.822
curvature mean = 0.003, std = 0.978
curvature mean = -0.007, std = 0.823
curvature mean = 0.001, std = 0.991
2 Reading smoothwm
curvature mean = -0.031, std = 0.327
curvature mean = 0.034, std = 0.242
curvature mean = 0.061, std = 0.308
curvature mean = 0.026, std = 0.300
curvature mean = 0.034, std = 0.467
curvature mean = 0.026, std = 0.326
curvature mean = 0.018, std = 0.596
curvature mean = 0.026, std = 0.338
curvature mean = 0.006, std = 0.708
MRISregister() return, current seed 0
-01: dt=0.0000, 130 negative triangles
121: dt=0.9900, 130 negative triangles
expanding nbhd size to 1
122: dt=0.9900, 189 negative triangles
123: dt=0.9900, 123 negative triangles
124: dt=0.9900, 116 negative triangles
125: dt=0.9900, 117 negative triangles
126: dt=0.9900, 113 negative triangles
127: dt=0.9900, 104 negative triangles
128: dt=0.9900, 88 negative triangles
129: dt=0.9900, 88 negative triangles
130: dt=0.9900, 73 negative triangles
131: dt=0.9900, 76 negative triangles
132: dt=0.9900, 77 negative triangles
133: dt=0.9900, 74 negative triangles
134: dt=0.9900, 63 negative triangles
135: dt=0.9900, 52 negative triangles
136: dt=0.9900, 53 negative triangles
137: dt=0.9900, 51 negative triangles
138: dt=0.9900, 54 negative triangles
139: dt=0.9900, 48 negative triangles
140: dt=0.9900, 45 negative triangles
141: dt=0.9900, 40 negative triangles
142: dt=0.9900, 41 negative triangles
143: dt=0.9900, 33 negative triangles
144: dt=0.9900, 37 negative triangles
145: dt=0.9900, 30 negative triangles
146: dt=0.9900, 26 negative triangles
147: dt=0.9900, 23 negative triangles
148: dt=0.9900, 22 negative triangles
149: dt=0.9900, 17 negative triangles
150: dt=0.9900, 21 negative triangles
151: dt=0.9900, 18 negative triangles
152: dt=0.9900, 14 negative triangles
153: dt=0.9900, 15 negative triangles
154: dt=0.9900, 8 negative triangles
155: dt=0.9900, 6 negative triangles
156: dt=0.9900, 4 negative triangles
157: dt=0.9900, 5 negative triangles
158: dt=0.9900, 6 negative triangles
159: dt=0.9900, 7 negative triangles
160: dt=0.9900, 5 negative triangles
161: dt=0.9900, 6 negative triangles
162: dt=0.9900, 4 negative triangles
163: dt=0.9900, 3 negative triangles
164: dt=0.9900, 4 negative triangles
165: dt=0.9900, 5 negative triangles
166: dt=0.9900, 6 negative triangles
167: dt=0.9900, 3 negative triangles
168: dt=0.9900, 3 negative triangles
169: dt=0.9900, 3 negative triangles
170: dt=0.9900, 5 negative triangles
171: dt=0.9900, 4 negative triangles
172: dt=0.9900, 2 negative triangles
173: dt=0.9900, 2 negative triangles
174: dt=0.9900, 2 negative triangles
175: dt=0.9900, 2 negative triangles
176: dt=0.9900, 1 negative triangles
177: dt=0.9900, 2 negative triangles
178: dt=0.9900, 1 negative triangles
179: dt=0.9900, 3 negative triangles
180: dt=0.9900, 1 negative triangles
181: dt=0.9900, 4 negative triangles
182: dt=0.9900, 1 negative triangles
183: dt=0.9900, 2 negative triangles
184: dt=0.9900, 2 negative triangles
writing registered surface to ../surf/rh.sphere.reg...
registration took 1.44 hours
mris_register utimesec    5159.954360
mris_register stimesec    4.387957
mris_register ru_maxrss   247728
mris_register ru_ixrss    0
mris_register ru_idrss    0
mris_register ru_isrss    0
mris_register ru_minflt   2341002
mris_register ru_majflt   0
mris_register ru_nswap    0
mris_register ru_inblock  0
mris_register ru_oublock  10664
mris_register ru_msgsnd   0
mris_register ru_msgrcv   0
mris_register ru_nsignals 0
mris_register ru_nvcsw    198
mris_register ru_nivcsw   39855
FSRUNTIME@ mris_register  1.4370 hours 1 threads
#--------------------------------------------
#@# Jacobian white lh Fri Jan 10 22:10:09 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_jacobian ../surf/lh.white.preaparc ../surf/lh.sphere.reg ../surf/lh.jacobian_white

reading surface from ../surf/lh.white.preaparc...
writing curvature file ../surf/lh.jacobian_white
#--------------------------------------------
#@# Jacobian white rh Fri Jan 10 22:10:13 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_jacobian ../surf/rh.white.preaparc ../surf/rh.sphere.reg ../surf/rh.jacobian_white

reading surface from ../surf/rh.white.preaparc...
writing curvature file ../surf/rh.jacobian_white
#--------------------------------------------
#@# AvgCurv lh Fri Jan 10 22:10:17 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mrisp_paint -a 5 /apps/x86_64_sci7/freesurfer-6.0.0/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif#6 ../surf/lh.sphere.reg ../surf/lh.avg_curv

averaging curvature patterns 5 times...
reading surface from ../surf/lh.sphere.reg...
reading template parameterization from /apps/x86_64_sci7/freesurfer-6.0.0/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif...
writing curvature file to ../surf/lh.avg_curv...
#--------------------------------------------
#@# AvgCurv rh Fri Jan 10 22:10:20 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mrisp_paint -a 5 /apps/x86_64_sci7/freesurfer-6.0.0/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif#6 ../surf/rh.sphere.reg ../surf/rh.avg_curv

averaging curvature patterns 5 times...
reading surface from ../surf/rh.sphere.reg...
reading template parameterization from /apps/x86_64_sci7/freesurfer-6.0.0/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif...
writing curvature file to ../surf/rh.avg_curv...
#-----------------------------------------
#@# Cortical Parc lh Fri Jan 10 22:10:23 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 066 lh ../surf/lh.sphere.reg /apps/x86_64_sci7/freesurfer-6.0.0/average/lh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.annot

setting seed for random number generator to 1234
using ../mri/aseg.presurf.mgz aseg volume to correct midline
$Id: mris_ca_label.c,v 1.37 2014/02/04 17:46:42 fischl Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading atlas from /apps/x86_64_sci7/freesurfer-6.0.0/average/lh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs...
reading color table from GCSA file....
average std = 0.8   using min determinant for regularization = 0.006
0 singular and 342 ill-conditioned covariance matrices regularized
input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature
labeling surface...
1526 labels changed using aseg
relabeling using gibbs priors...
000:   3212 changed, 144820 examined...
001:    817 changed, 13603 examined...
002:    205 changed, 4483 examined...
003:     65 changed, 1255 examined...
004:     20 changed, 387 examined...
005:      9 changed, 122 examined...
006:      3 changed, 36 examined...
007:      0 changed, 11 examined...
258 labels changed using aseg
000: 127 total segments, 66 labels (535 vertices) changed
001: 64 total segments, 3 labels (5 vertices) changed
002: 61 total segments, 0 labels (0 vertices) changed
10 filter iterations complete (10 requested, 9 changed)
rationalizing unknown annotations with cortex label
relabeling unknown label...
relabeling corpuscallosum label...
2104 vertices marked for relabeling...
2104 labels changed in reclassification.
writing output to ../label/lh.aparc.annot...
classification took 0 minutes and 27 seconds.
#-----------------------------------------
#@# Cortical Parc rh Fri Jan 10 22:10:50 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 066 rh ../surf/rh.sphere.reg /apps/x86_64_sci7/freesurfer-6.0.0/average/rh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/rh.aparc.annot

setting seed for random number generator to 1234
using ../mri/aseg.presurf.mgz aseg volume to correct midline
$Id: mris_ca_label.c,v 1.37 2014/02/04 17:46:42 fischl Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading atlas from /apps/x86_64_sci7/freesurfer-6.0.0/average/rh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs...
reading color table from GCSA file....
average std = 0.7   using min determinant for regularization = 0.004
0 singular and 309 ill-conditioned covariance matrices regularized
input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature
labeling surface...
1784 labels changed using aseg
relabeling using gibbs priors...
000:   3120 changed, 151460 examined...
001:    746 changed, 13213 examined...
002:    189 changed, 4161 examined...
003:     60 changed, 1066 examined...
004:     21 changed, 390 examined...
005:     10 changed, 121 examined...
006:      4 changed, 55 examined...
007:      2 changed, 21 examined...
008:      2 changed, 10 examined...
009:      3 changed, 14 examined...
010:      2 changed, 13 examined...
011:      0 changed, 13 examined...
134 labels changed using aseg
000: 110 total segments, 73 labels (348 vertices) changed
001: 39 total segments, 2 labels (4 vertices) changed
002: 37 total segments, 0 labels (0 vertices) changed
10 filter iterations complete (10 requested, 6 changed)
rationalizing unknown annotations with cortex label
relabeling unknown label...
relabeling corpuscallosum label...
2607 vertices marked for relabeling...
2607 labels changed in reclassification.
writing output to ../label/rh.aparc.annot...
classification took 0 minutes and 25 seconds.
#--------------------------------------------
#@# Make Pial Surf lh Fri Jan 10 22:11:16 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 066 lh

using white.preaparc starting white location...
using white.preaparc starting pial locations...
using aseg volume ../mri/aseg.presurf to prevent surfaces crossing the midline
INFO: assuming MGZ format for volumes.
using brain.finalsurfs as T1 volume...
$Id: mris_make_surfaces.c,v 1.164.2.4 2016/12/13 22:26:32 zkaufman Exp $
$Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/filled.mgz...
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/brain.finalsurfs.mgz...
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/../mri/aseg.presurf.mgz...
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/wm.mgz...
30313 bright wm thresholded.
4930 bright non-wm voxels segmented.
reading original surface position from /study2/emowrap/data/freesurfer/subjects/066/surf/lh.orig...
computing class statistics...
border white:    294007 voxels (1.75%)
border gray      332888 voxels (1.98%)
WM (96.0): 96.8 +- 9.0 [70.0 --> 110.0]
GM (70.0) : 68.3 +- 12.7 [30.0 --> 110.0]
setting MIN_GRAY_AT_WHITE_BORDER to 56.3 (was 70)
setting MAX_BORDER_WHITE to 112.0 (was 105)
setting MIN_BORDER_WHITE to 69.0 (was 85)
setting MAX_CSF to 43.6 (was 40)
setting MAX_GRAY to 94.0 (was 95)
setting MAX_GRAY_AT_CSF_BORDER to 56.3 (was 75)
setting MIN_GRAY_AT_CSF_BORDER to 30.9 (was 40)
using class modes intead of means, discounting robust sigmas....
intensity peaks found at WM=103+-10.4,    GM=69+-11.3
mean inside = 90.6, mean outside = 70.7
smoothing surface for 5 iterations...
reading initial white vertex positions from white.preaparc...
reading colortable from annotation file...
colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
repositioning cortical surface to gray/white boundary
smoothing T1 volume with sigma = 2.000
vertex spacing 0.90 +- 0.33 (0.02-->12.24) (max @ vno 142176 --> 142177)
face area 0.33 +- 0.22 (0.00-->15.80)
mean absolute distance = 0.85 +- 1.13
4065 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
inhibiting deformation at non-cortical midline structures...
deleting segment 0 with 37 points - only 0.00% unknown
deleting segment 1 with 116 points - only 0.00% unknown
deleting segment 2 with 5 points - only 0.00% unknown
deleting segment 3 with 80 points - only 0.00% unknown
deleting segment 5 with 6 points - only 0.00% unknown
removing 1 vertex label from ripped group
deleting segment 8 with 23 points - only 0.00% unknown
deleting segment 9 with 331 points - only 0.00% unknown
removing 1 vertex label from ripped group
deleting segment 10 with 1 points - only 0.00% unknown
deleting segment 12 with 78 points - only 0.00% unknown
deleting segment 13 with 46 points - only 0.00% unknown
deleting segment 14 with 8 points - only 0.00% unknown
deleting segment 15 with 20 points - only 0.00% unknown
deleting segment 16 with 56 points - only 0.00% unknown
deleting segment 17 with 8 points - only 0.00% unknown
deleting segment 18 with 23 points - only 0.00% unknown
deleting segment 19 with 172 points - only 0.00% unknown
deleting segment 20 with 9 points - only 0.00% unknown
deleting segment 21 with 45 points - only 0.00% unknown
removing 1 vertex label from ripped group
deleting segment 22 with 1 points - only 0.00% unknown
mean border=80.2, 748 (746) missing vertices, mean dist 0.3 [1.8 (%14.7)->0.7 (%85.3))]
%32 local maxima, %63 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=2.0, host=c139., nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
complete_dist_mat 0
rms 0
smooth_averages 0
remove_neg 0
ico_order 0
which_surface 0
target_radius 0.000000
nfields 0
scale 0.000000
desired_rms_height 0.000000
momentum 0.000000
nbhd_size 0
max_nbrs 0
niterations 25
nsurfaces 0
SURFACES 3
flags 0 (0)
use curv 0
no sulc 0
no rigid align 0
mris->nsize 2
mris->hemisphere 0
randomSeed 0

smoothing T1 volume with sigma = 1.000
vertex spacing 0.91 +- 0.31 (0.04-->13.06) (max @ vno 142176 --> 142177)
face area 0.33 +- 0.22 (0.00-->15.12)
mean absolute distance = 0.46 +- 0.78
4879 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
000: dt: 0.0000, sse=2847322.5, rms=8.753
001: dt: 0.5000, sse=1612559.8, rms=5.672 (35.202%)
002: dt: 0.5000, sse=1271749.8, rms=4.497 (20.718%)
003: dt: 0.5000, sse=1222137.2, rms=4.312 (4.113%)
004: dt: 0.5000, sse=1174582.2, rms=4.088 (5.184%)
rms = 4.17, time step reduction 1 of 3 to 0.250...
005: dt: 0.2500, sse=1030359.2, rms=3.410 (16.589%)
006: dt: 0.2500, sse=982388.3, rms=3.110 (8.809%)
007: dt: 0.2500, sse=966055.2, rms=3.002 (3.460%)
008: dt: 0.2500, sse=955479.4, rms=2.949 (1.771%)
rms = 2.92, time step reduction 2 of 3 to 0.125...
009: dt: 0.2500, sse=958372.6, rms=2.921 (0.943%)
010: dt: 0.1250, sse=937528.1, rms=2.855 (2.262%)
rms = 2.84, time step reduction 3 of 3 to 0.062...
011: dt: 0.1250, sse=936357.0, rms=2.837 (0.623%)
positioning took 2.1 minutes
inhibiting deformation at non-cortical midline structures...
deleting segment 0 with 40 points - only 0.00% unknown
deleting segment 1 with 112 points - only 0.00% unknown
deleting segment 2 with 7 points - only 0.00% unknown
deleting segment 3 with 70 points - only 0.00% unknown
removing 3 vertex label from ripped group
deleting segment 5 with 18 points - only 0.00% unknown
deleting segment 6 with 274 points - only 0.00% unknown
removing 3 vertex label from ripped group
deleting segment 7 with 3 points - only 0.00% unknown
deleting segment 8 with 29 points - only 0.00% unknown
deleting segment 9 with 63 points - only 0.00% unknown
removing 4 vertex label from ripped group
deleting segment 10 with 4 points - only 0.00% unknown
deleting segment 11 with 32 points - only 0.00% unknown
deleting segment 12 with 17 points - only 0.00% unknown
deleting segment 13 with 58 points - only 0.00% unknown
deleting segment 14 with 11 points - only 0.00% unknown
deleting segment 15 with 148 points - only 0.00% unknown
deleting segment 16 with 28 points - only 0.00% unknown
removing 1 vertex label from ripped group
deleting segment 17 with 1 points - only 0.00% unknown
mean border=83.4, 567 (319) missing vertices, mean dist -0.3 [0.6 (%67.0)->0.2 (%33.0))]
%55 local maxima, %40 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=1.0, host=c139., nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 0.500
vertex spacing 0.90 +- 0.31 (0.04-->13.57) (max @ vno 142176 --> 142177)
face area 0.35 +- 0.23 (0.00-->16.32)
mean absolute distance = 0.33 +- 0.52
4221 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
000: dt: 0.0000, sse=1568070.2, rms=5.451
012: dt: 0.5000, sse=1250961.4, rms=4.222 (22.554%)
rms = 4.18, time step reduction 1 of 3 to 0.250...
013: dt: 0.5000, sse=1234504.9, rms=4.179 (1.022%)
014: dt: 0.2500, sse=1057683.8, rms=3.279 (21.524%)
015: dt: 0.2500, sse=1019088.8, rms=3.082 (6.008%)
016: dt: 0.2500, sse=1011271.2, rms=3.014 (2.208%)
rms = 2.98, time step reduction 2 of 3 to 0.125...
017: dt: 0.2500, sse=1005937.8, rms=2.978 (1.198%)
018: dt: 0.1250, sse=993288.6, rms=2.911 (2.235%)
rms = 2.90, time step reduction 3 of 3 to 0.062...
019: dt: 0.1250, sse=984457.6, rms=2.899 (0.435%)
positioning took 1.4 minutes
inhibiting deformation at non-cortical midline structures...
deleting segment 0 with 42 points - only 0.00% unknown
deleting segment 1 with 112 points - only 0.00% unknown
deleting segment 2 with 7 points - only 0.00% unknown
deleting segment 3 with 67 points - only 0.00% unknown
deleting segment 4 with 17 points - only 0.00% unknown
deleting segment 5 with 303 points - only 0.00% unknown
removing 4 vertex label from ripped group
deleting segment 8 with 27 points - only 0.00% unknown
deleting segment 9 with 72 points - only 0.00% unknown
removing 4 vertex label from ripped group
deleting segment 10 with 4 points - only 0.00% unknown
deleting segment 11 with 5 points - only 0.00% unknown
deleting segment 12 with 32 points - only 0.00% unknown
deleting segment 13 with 24 points - only 0.00% unknown
deleting segment 14 with 60 points - only 0.00% unknown
deleting segment 15 with 11 points - only 0.00% unknown
deleting segment 16 with 148 points - only 0.00% unknown
deleting segment 17 with 34 points - only 0.00% unknown
removing 1 vertex label from ripped group
deleting segment 18 with 1 points - only 0.00% unknown
mean border=86.0, 573 (258) missing vertices, mean dist -0.2 [0.4 (%69.3)->0.2 (%30.7))]
%73 local maxima, %22 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=0.5, host=c139., nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 0.250
vertex spacing 0.89 +- 0.31 (0.05-->13.88) (max @ vno 142176 --> 142177)
face area 0.34 +- 0.23 (0.00-->15.83)
mean absolute distance = 0.26 +- 0.41
4107 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
000: dt: 0.0000, sse=1318484.6, rms=4.626
020: dt: 0.5000, sse=1164562.2, rms=3.868 (16.392%)
rms = 4.05, time step reduction 1 of 3 to 0.250...
021: dt: 0.2500, sse=1032342.1, rms=3.279 (15.216%)
022: dt: 0.2500, sse=1011566.2, rms=3.032 (7.549%)
023: dt: 0.2500, sse=997868.0, rms=2.953 (2.609%)
rms = 2.93, time step reduction 2 of 3 to 0.125...
024: dt: 0.2500, sse=986406.6, rms=2.930 (0.773%)
025: dt: 0.1250, sse=964573.8, rms=2.864 (2.238%)
rms = 2.85, time step reduction 3 of 3 to 0.062...
026: dt: 0.1250, sse=956089.7, rms=2.846 (0.640%)
positioning took 1.3 minutes
inhibiting deformation at non-cortical midline structures...
deleting segment 0 with 42 points - only 0.00% unknown
deleting segment 1 with 114 points - only 0.00% unknown
deleting segment 2 with 7 points - only 0.00% unknown
deleting segment 3 with 72 points - only 0.00% unknown
deleting segment 4 with 19 points - only 0.00% unknown
deleting segment 5 with 313 points - only 0.00% unknown
deleting segment 8 with 29 points - only 0.00% unknown
deleting segment 9 with 74 points - only 0.00% unknown
deleting segment 10 with 5 points - only 0.00% unknown
deleting segment 11 with 9 points - only 0.00% unknown
deleting segment 12 with 5 points - only 0.00% unknown
deleting segment 13 with 25 points - only 0.00% unknown
deleting segment 14 with 67 points - only 0.00% unknown
deleting segment 15 with 59 points - only 0.00% unknown
deleting segment 16 with 7 points - only 0.00% unknown
deleting segment 17 with 11 points - only 0.00% unknown
deleting segment 18 with 152 points - only 0.00% unknown
deleting segment 19 with 30 points - only 0.00% unknown
deleting segment 20 with 11 points - only 0.00% unknown
removing 1 vertex label from ripped group
deleting segment 21 with 1 points - only 0.00% unknown
mean border=86.9, 650 (238) missing vertices, mean dist -0.1 [0.3 (%56.4)->0.2 (%43.6))]
%79 local maxima, %15 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=0.2, host=c139., nav=0, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
writing white matter surface to /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white...
writing smoothed curvature to lh.curv
000: dt: 0.0000, sse=1009264.9, rms=3.212
rms = 3.26, time step reduction 1 of 3 to 0.250...
027: dt: 0.2500, sse=953487.0, rms=2.891 (9.971%)
028: dt: 0.2500, sse=939071.0, rms=2.725 (5.757%)
rms = 2.74, time step reduction 2 of 3 to 0.125...
rms = 2.71, time step reduction 3 of 3 to 0.062...
029: dt: 0.1250, sse=932302.3, rms=2.712 (0.481%)
positioning took 0.8 minutes
generating cortex label...
17 non-cortical segments detected
only using segment with 7563 vertices
erasing segment 1 (vno[0] = 55187)
erasing segment 2 (vno[0] = 79851)
erasing segment 3 (vno[0] = 87348)
erasing segment 4 (vno[0] = 97878)
erasing segment 5 (vno[0] = 98136)
erasing segment 6 (vno[0] = 100401)
erasing segment 7 (vno[0] = 101603)
erasing segment 8 (vno[0] = 101657)
erasing segment 9 (vno[0] = 102754)
erasing segment 10 (vno[0] = 103956)
erasing segment 11 (vno[0] = 104006)
erasing segment 12 (vno[0] = 104019)
erasing segment 13 (vno[0] = 104970)
erasing segment 14 (vno[0] = 104992)
erasing segment 15 (vno[0] = 120667)
erasing segment 16 (vno[0] = 143995)
writing cortex label to /study2/emowrap/data/freesurfer/subjects/066/label/lh.cortex.label...
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/lh.curv
writing smoothed area to lh.area
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/lh.area
vertex spacing 0.90 +- 0.34 (0.02-->13.95) (max @ vno 142176 --> 142177)
face area 0.33 +- 0.23 (0.00-->15.66)
repositioning cortical surface to gray/csf boundary.
smoothing T1 volume with sigma = 2.000
averaging target values for 5 iterations...
inhibiting deformation at non-cortical midline structures...
removing 2 vertex label from ripped group
deleting segment 1 with 2 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 5 with 11 points - only 0.00% unknown
deleting segment 6 with 29 points - only 0.00% unknown
deleting segment 7 with 5 points - only 0.00% unknown
deleting segment 8 with 5 points - only 0.00% unknown
smoothing surface for 5 iterations...
reading initial pial vertex positions from white.preaparc...
mean border=52.8, 762 (762) missing vertices, mean dist 1.9 [3.0 (%0.4)->2.3 (%99.6))]
%22 local maxima, %59 large gradients and %14 min vals, 122 gradients ignored
perforing initial smooth deformation to move away from white surface
tol=1.0e-04, sigma=2.0, host=c139., nav=16, nbrs=2, l_surf_repulse=1.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.05
000: dt: 0.0000, sse=33499024.0, rms=34.459
001: dt: 0.0500, sse=29756638.0, rms=32.432 (5.881%)
002: dt: 0.0500, sse=27105006.0, rms=30.916 (4.675%)
003: dt: 0.0500, sse=25072166.0, rms=29.701 (3.929%)
004: dt: 0.0500, sse=23423152.0, rms=28.678 (3.445%)
005: dt: 0.0500, sse=22033416.0, rms=27.787 (3.109%)
006: dt: 0.0500, sse=20827828.0, rms=26.989 (2.869%)
007: dt: 0.0500, sse=19760232.0, rms=26.263 (2.691%)
008: dt: 0.0500, sse=18799276.0, rms=25.592 (2.556%)
009: dt: 0.0500, sse=17922504.0, rms=24.963 (2.455%)
010: dt: 0.0500, sse=17117168.0, rms=24.372 (2.369%)
positioning took 1.6 minutes
mean border=52.6, 552 (421) missing vertices, mean dist 1.5 [1.6 (%0.8)->1.8 (%99.2))]
%23 local maxima, %59 large gradients and %13 min vals, 107 gradients ignored
tol=1.0e-04, sigma=2.0, host=c139., nav=16, nbrs=2, l_surf_repulse=1.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.05
000: dt: 0.0000, sse=18073696.0, rms=25.049
011: dt: 0.0500, sse=17317314.0, rms=24.497 (2.203%)
012: dt: 0.0500, sse=16616855.0, rms=23.974 (2.132%)
013: dt: 0.0500, sse=15965217.0, rms=23.478 (2.071%)
014: dt: 0.0500, sse=15359203.0, rms=23.007 (2.008%)
015: dt: 0.0500, sse=14795199.0, rms=22.559 (1.945%)
016: dt: 0.0500, sse=14271139.0, rms=22.135 (1.880%)
017: dt: 0.0500, sse=13781316.0, rms=21.731 (1.825%)
018: dt: 0.0500, sse=13324600.0, rms=21.348 (1.765%)
019: dt: 0.0500, sse=12896504.0, rms=20.982 (1.714%)
020: dt: 0.0500, sse=12496535.0, rms=20.634 (1.657%)
positioning took 1.6 minutes
mean border=52.4, 523 (339) missing vertices, mean dist 1.2 [0.5 (%2.7)->1.4 (%97.3))]
%23 local maxima, %59 large gradients and %13 min vals, 125 gradients ignored
tol=1.0e-04, sigma=2.0, host=c139., nav=16, nbrs=2, l_surf_repulse=1.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.05
000: dt: 0.0000, sse=12654563.0, rms=20.772
021: dt: 0.0500, sse=12251452.0, rms=20.418 (1.704%)
022: dt: 0.0500, sse=11878234.0, rms=20.084 (1.632%)
023: dt: 0.0500, sse=11523197.0, rms=19.762 (1.605%)
024: dt: 0.0500, sse=11191788.0, rms=19.456 (1.547%)
025: dt: 0.0500, sse=10882524.0, rms=19.167 (1.489%)
026: dt: 0.0500, sse=10593256.0, rms=18.891 (1.435%)
027: dt: 0.0500, sse=10316805.0, rms=18.625 (1.412%)
028: dt: 0.0500, sse=10049428.0, rms=18.363 (1.406%)
029: dt: 0.0500, sse=9789362.0, rms=18.104 (1.407%)
030: dt: 0.0500, sse=9537115.0, rms=17.850 (1.404%)
positioning took 1.5 minutes
mean border=52.3, 533 (292) missing vertices, mean dist 0.9 [0.2 (%14.8)->1.3 (%85.2))]
%24 local maxima, %59 large gradients and %13 min vals, 92 gradients ignored
tol=1.0e-04, sigma=2.0, host=c139., nav=16, nbrs=2, l_surf_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 1.000
averaging target values for 5 iterations...
000: dt: 0.0000, sse=9738588.0, rms=18.047
031: dt: 0.5000, sse=8002248.5, rms=16.219 (10.131%)
032: dt: 0.5000, sse=6678981.5, rms=14.662 (9.597%)
033: dt: 0.5000, sse=5624765.0, rms=13.302 (9.281%)
034: dt: 0.5000, sse=4745023.0, rms=12.035 (9.523%)
035: dt: 0.5000, sse=4071584.5, rms=10.977 (8.794%)
036: dt: 0.5000, sse=3485550.8, rms=9.953 (9.324%)
037: dt: 0.5000, sse=3053288.2, rms=9.136 (8.210%)
038: dt: 0.5000, sse=2710448.2, rms=8.420 (7.834%)
039: dt: 0.5000, sse=2502597.2, rms=7.965 (5.408%)
040: dt: 0.5000, sse=2349041.2, rms=7.600 (4.583%)
041: dt: 0.5000, sse=2280954.0, rms=7.441 (2.087%)
042: dt: 0.5000, sse=2218195.5, rms=7.279 (2.181%)
rms = 7.25, time step reduction 1 of 3 to 0.250...
043: dt: 0.5000, sse=2203586.2, rms=7.248 (0.420%)
044: dt: 0.2500, sse=1833119.8, rms=6.205 (14.395%)
045: dt: 0.2500, sse=1732262.0, rms=5.907 (4.794%)
rms = 5.93, time step reduction 2 of 3 to 0.125...
046: dt: 0.1250, sse=1669612.8, rms=5.706 (3.406%)
047: dt: 0.1250, sse=1585800.0, rms=5.424 (4.943%)
048: dt: 0.1250, sse=1567726.1, rms=5.362 (1.150%)
rms = 5.35, time step reduction 3 of 3 to 0.062...
049: dt: 0.1250, sse=1565680.9, rms=5.354 (0.138%)
positioning took 3.7 minutes
mean border=49.9, 1515 (196) missing vertices, mean dist 0.1 [0.2 (%42.2)->0.4 (%57.8))]
%42 local maxima, %40 large gradients and %13 min vals, 55 gradients ignored
tol=1.0e-04, sigma=1.0, host=c139., nav=8, nbrs=2, l_surf_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 0.500
averaging target values for 5 iterations...
000: dt: 0.0000, sse=2188797.0, rms=6.637
rms = 7.05, time step reduction 1 of 3 to 0.250...
050: dt: 0.2500, sse=1886633.9, rms=5.741 (13.503%)
051: dt: 0.2500, sse=1758363.2, rms=5.310 (7.512%)
rms = 5.37, time step reduction 2 of 3 to 0.125...
052: dt: 0.1250, sse=1700754.5, rms=5.104 (3.871%)
053: dt: 0.1250, sse=1623039.1, rms=4.816 (5.645%)
054: dt: 0.1250, sse=1589429.8, rms=4.688 (2.663%)
055: dt: 0.1250, sse=1573472.9, rms=4.627 (1.304%)
rms = 4.59, time step reduction 3 of 3 to 0.062...
056: dt: 0.1250, sse=1564540.0, rms=4.593 (0.726%)
positioning took 1.7 minutes
mean border=48.0, 1733 (185) missing vertices, mean dist 0.1 [0.1 (%42.4)->0.3 (%57.6))]
%56 local maxima, %26 large gradients and %13 min vals, 49 gradients ignored
tol=1.0e-04, sigma=0.5, host=c139., nav=4, nbrs=2, l_surf_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 0.250
averaging target values for 5 iterations...
000: dt: 0.0000, sse=1781749.0, rms=5.401
rms = 6.66, time step reduction 1 of 3 to 0.250...
057: dt: 0.2500, sse=1627254.1, rms=4.849 (10.226%)
058: dt: 0.2500, sse=1595378.9, rms=4.726 (2.525%)
rms = 4.87, time step reduction 2 of 3 to 0.125...
059: dt: 0.1250, sse=1566992.6, rms=4.614 (2.378%)
060: dt: 0.1250, sse=1537197.6, rms=4.497 (2.534%)
061: dt: 0.1250, sse=1516742.2, rms=4.417 (1.792%)
rms = 4.38, time step reduction 3 of 3 to 0.062...
062: dt: 0.1250, sse=1507615.9, rms=4.381 (0.796%)
positioning took 1.5 minutes
mean border=47.0, 2677 (179) missing vertices, mean dist 0.1 [0.1 (%47.0)->0.2 (%53.0))]
%59 local maxima, %23 large gradients and %12 min vals, 46 gradients ignored
tol=1.0e-04, sigma=0.2, host=c139., nav=2, nbrs=2, l_surf_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
writing pial surface to /study2/emowrap/data/freesurfer/subjects/066/surf/lh.pial...
writing smoothed curvature to lh.curv.pial
000: dt: 0.0000, sse=1554855.2, rms=4.582
rms = 5.95, time step reduction 1 of 3 to 0.250...
063: dt: 0.2500, sse=1495615.8, rms=4.336 (5.371%)
rms = 4.32, time step reduction 2 of 3 to 0.125...
064: dt: 0.2500, sse=1490206.2, rms=4.324 (0.276%)
065: dt: 0.1250, sse=1462112.6, rms=4.202 (2.831%)
066: dt: 0.1250, sse=1440279.6, rms=4.110 (2.173%)
rms = 4.09, time step reduction 3 of 3 to 0.062...
067: dt: 0.1250, sse=1434610.8, rms=4.089 (0.527%)
positioning took 1.2 minutes
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/lh.curv.pial
writing smoothed area to lh.area.pial
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/lh.area.pial
vertex spacing 1.01 +- 0.44 (0.09-->8.33) (max @ vno 141857 --> 143311)
face area 0.41 +- 0.33 (0.00-->14.83)
measuring cortical thickness...
writing cortical thickness estimate to 'thickness' file.
0 of 144820 vertices processed
25000 of 144820 vertices processed
50000 of 144820 vertices processed
75000 of 144820 vertices processed
100000 of 144820 vertices processed
125000 of 144820 vertices processed
0 of 144820 vertices processed
25000 of 144820 vertices processed
50000 of 144820 vertices processed
75000 of 144820 vertices processed
100000 of 144820 vertices processed
125000 of 144820 vertices processed
thickness calculation complete, 63:322 truncations.
51255 vertices at 0 distance
115345 vertices at 1 distance
75431 vertices at 2 distance
25480 vertices at 3 distance
7066 vertices at 4 distance
1823 vertices at 5 distance
567 vertices at 6 distance
233 vertices at 7 distance
88 vertices at 8 distance
61 vertices at 9 distance
37 vertices at 10 distance
22 vertices at 11 distance
6 vertices at 12 distance
8 vertices at 13 distance
7 vertices at 14 distance
5 vertices at 15 distance
8 vertices at 16 distance
15 vertices at 17 distance
9 vertices at 18 distance
11 vertices at 19 distance
3 vertices at 20 distance
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/lh.thickness
positioning took 24.9 minutes
#--------------------------------------------
#@# Make Pial Surf rh Fri Jan 10 22:36:09 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 066 rh

using white.preaparc starting white location...
using white.preaparc starting pial locations...
using aseg volume ../mri/aseg.presurf to prevent surfaces crossing the midline
INFO: assuming MGZ format for volumes.
using brain.finalsurfs as T1 volume...
$Id: mris_make_surfaces.c,v 1.164.2.4 2016/12/13 22:26:32 zkaufman Exp $
$Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/filled.mgz...
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/brain.finalsurfs.mgz...
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/../mri/aseg.presurf.mgz...
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/wm.mgz...
30313 bright wm thresholded.
4930 bright non-wm voxels segmented.
reading original surface position from /study2/emowrap/data/freesurfer/subjects/066/surf/rh.orig...
computing class statistics...
border white:    294007 voxels (1.75%)
border gray      332888 voxels (1.98%)
WM (96.0): 96.8 +- 9.0 [70.0 --> 110.0]
GM (70.0) : 68.3 +- 12.7 [30.0 --> 110.0]
setting MIN_GRAY_AT_WHITE_BORDER to 54.3 (was 70)
setting MAX_BORDER_WHITE to 111.0 (was 105)
setting MIN_BORDER_WHITE to 67.0 (was 85)
setting MAX_CSF to 41.6 (was 40)
setting MAX_GRAY to 93.0 (was 95)
setting MAX_GRAY_AT_CSF_BORDER to 54.3 (was 75)
setting MIN_GRAY_AT_CSF_BORDER to 28.9 (was 40)
using class modes intead of means, discounting robust sigmas....
intensity peaks found at WM=102+-8.7,    GM=67+-10.4
mean inside = 91.7, mean outside = 71.3
smoothing surface for 5 iterations...
reading initial white vertex positions from white.preaparc...
reading colortable from annotation file...
colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
repositioning cortical surface to gray/white boundary
smoothing T1 volume with sigma = 2.000
vertex spacing 0.89 +- 0.26 (0.01-->5.32) (max @ vno 518 --> 149435)
face area 0.33 +- 0.17 (0.00-->5.78)
mean absolute distance = 0.85 +- 1.09
4146 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
inhibiting deformation at non-cortical midline structures...
deleting segment 0 with 35 points - only 0.00% unknown
deleting segment 2 with 12 points - only 0.00% unknown
deleting segment 3 with 12 points - only 0.00% unknown
deleting segment 5 with 278 points - only 0.00% unknown
removing 1 vertex label from ripped group
deleting segment 6 with 1 points - only 0.00% unknown
deleting segment 7 with 5 points - only 0.00% unknown
removing 3 vertex label from ripped group
deleting segment 8 with 3 points - only 0.00% unknown
removing 1 vertex label from ripped group
deleting segment 9 with 1 points - only 0.00% unknown
deleting segment 10 with 5 points - only 0.00% unknown
deleting segment 11 with 21 points - only 0.00% unknown
deleting segment 12 with 15 points - only 0.00% unknown
deleting segment 13 with 5 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 14 with 2 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 15 with 2 points - only 0.00% unknown
deleting segment 16 with 6 points - only 0.00% unknown
mean border=79.5, 477 (476) missing vertices, mean dist 0.4 [1.6 (%15.3)->0.7 (%84.7))]
%39 local maxima, %57 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=2.0, host=c139., nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
complete_dist_mat 0
rms 0
smooth_averages 0
remove_neg 0
ico_order 0
which_surface 0
target_radius 0.000000
nfields 0
scale 0.000000
desired_rms_height 0.000000
momentum 0.000000
nbhd_size 0
max_nbrs 0
niterations 25
nsurfaces 0
SURFACES 3
flags 0 (0)
use curv 0
no sulc 0
no rigid align 0
mris->nsize 2
mris->hemisphere 1
randomSeed 0

smoothing T1 volume with sigma = 1.000
vertex spacing 0.91 +- 0.27 (0.05-->5.30) (max @ vno 518 --> 149435)
face area 0.33 +- 0.17 (0.00-->6.25)
mean absolute distance = 0.46 +- 0.75
4979 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
000: dt: 0.0000, sse=2872692.0, rms=8.584
001: dt: 0.5000, sse=1514641.1, rms=5.153 (39.972%)
002: dt: 0.5000, sse=1145504.9, rms=3.798 (26.296%)
003: dt: 0.5000, sse=1093321.8, rms=3.577 (5.824%)
004: dt: 0.5000, sse=1058394.5, rms=3.373 (5.698%)
rms = 3.48, time step reduction 1 of 3 to 0.250...
005: dt: 0.2500, sse=895430.4, rms=2.461 (27.042%)
006: dt: 0.2500, sse=854760.1, rms=2.045 (16.916%)
007: dt: 0.2500, sse=831582.1, rms=1.914 (6.408%)
rms = 1.87, time step reduction 2 of 3 to 0.125...
008: dt: 0.2500, sse=827096.8, rms=1.875 (2.013%)
009: dt: 0.1250, sse=818356.2, rms=1.787 (4.679%)
rms = 1.76, time step reduction 3 of 3 to 0.062...
010: dt: 0.1250, sse=813772.6, rms=1.763 (1.374%)
positioning took 2.0 minutes
inhibiting deformation at non-cortical midline structures...
deleting segment 0 with 40 points - only 0.00% unknown
removing 3 vertex label from ripped group
deleting segment 1 with 3 points - only 0.00% unknown
removing 1 vertex label from ripped group
deleting segment 2 with 1 points - only 0.00% unknown
removing 3 vertex label from ripped group
deleting segment 4 with 15 points - only 0.00% unknown
deleting segment 5 with 215 points - only 0.00% unknown
removing 4 vertex label from ripped group
deleting segment 6 with 4 points - only 0.00% unknown
removing 4 vertex label from ripped group
deleting segment 7 with 4 points - only 0.00% unknown
removing 1 vertex label from ripped group
deleting segment 8 with 1 points - only 0.00% unknown
deleting segment 9 with 12 points - only 0.00% unknown
removing 1 vertex label from ripped group
removing 1 vertex label from ripped group
deleting segment 11 with 1 points - only 0.00% unknown
removing 4 vertex label from ripped group
deleting segment 12 with 4 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 13 with 2 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 14 with 2 points - only 0.00% unknown
deleting segment 15 with 5 points - only 0.00% unknown
mean border=82.9, 218 (94) missing vertices, mean dist -0.3 [0.6 (%67.7)->0.2 (%32.3))]
%59 local maxima, %37 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=1.0, host=c139., nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 0.500
vertex spacing 0.89 +- 0.26 (0.03-->5.23) (max @ vno 518 --> 149435)
face area 0.34 +- 0.18 (0.00-->6.36)
mean absolute distance = 0.34 +- 0.51
4917 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
000: dt: 0.0000, sse=1493146.4, rms=5.023
011: dt: 0.5000, sse=1114145.1, rms=3.442 (31.470%)
012: dt: 0.5000, sse=1089274.1, rms=3.364 (2.275%)
rms = 3.32, time step reduction 1 of 3 to 0.250...
013: dt: 0.5000, sse=1078732.5, rms=3.315 (1.443%)
014: dt: 0.2500, sse=892153.6, rms=2.061 (37.831%)
015: dt: 0.2500, sse=848695.9, rms=1.710 (17.042%)
016: dt: 0.2500, sse=847796.6, rms=1.659 (2.975%)
017: dt: 0.2500, sse=845916.5, rms=1.606 (3.181%)
rms = 1.60, time step reduction 2 of 3 to 0.125...
018: dt: 0.2500, sse=851711.4, rms=1.599 (0.473%)
019: dt: 0.1250, sse=826310.8, rms=1.491 (6.754%)
rms = 1.47, time step reduction 3 of 3 to 0.062...
020: dt: 0.1250, sse=840071.1, rms=1.472 (1.283%)
positioning took 1.7 minutes
inhibiting deformation at non-cortical midline structures...
deleting segment 0 with 33 points - only 0.00% unknown
deleting segment 1 with 13 points - only 0.00% unknown
removing 3 vertex label from ripped group
deleting segment 3 with 15 points - only 0.00% unknown
deleting segment 4 with 216 points - only 0.00% unknown
removing 4 vertex label from ripped group
deleting segment 5 with 4 points - only 0.00% unknown
deleting segment 6 with 12 points - only 0.00% unknown
deleting segment 7 with 13 points - only 0.00% unknown
removing 1 vertex label from ripped group
deleting segment 9 with 6 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 10 with 2 points - only 0.00% unknown
deleting segment 11 with 5 points - only 0.00% unknown
mean border=85.5, 240 (52) missing vertices, mean dist -0.2 [0.4 (%68.5)->0.2 (%31.5))]
%76 local maxima, %20 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=0.5, host=c139., nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 0.250
vertex spacing 0.88 +- 0.26 (0.04-->5.21) (max @ vno 518 --> 149435)
face area 0.33 +- 0.17 (0.00-->5.87)
mean absolute distance = 0.27 +- 0.41
4696 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
000: dt: 0.0000, sse=1197923.2, rms=3.927
021: dt: 0.5000, sse=1020193.9, rms=3.018 (23.151%)
rms = 3.23, time step reduction 1 of 3 to 0.250...
022: dt: 0.2500, sse=873069.1, rms=2.123 (29.662%)
023: dt: 0.2500, sse=827407.2, rms=1.680 (20.843%)
024: dt: 0.2500, sse=810812.9, rms=1.549 (7.811%)
rms = 1.51, time step reduction 2 of 3 to 0.125...
025: dt: 0.2500, sse=806082.4, rms=1.514 (2.228%)
026: dt: 0.1250, sse=794179.0, rms=1.404 (7.272%)
rms = 1.38, time step reduction 3 of 3 to 0.062...
027: dt: 0.1250, sse=792877.0, rms=1.382 (1.566%)
positioning took 1.3 minutes
inhibiting deformation at non-cortical midline structures...
deleting segment 0 with 36 points - only 0.00% unknown
deleting segment 1 with 13 points - only 0.00% unknown
removing 3 vertex label from ripped group
deleting segment 3 with 15 points - only 0.00% unknown
deleting segment 4 with 230 points - only 0.00% unknown
deleting segment 5 with 9 points - only 0.00% unknown
removing 3 vertex label from ripped group
deleting segment 6 with 3 points - only 0.00% unknown
deleting segment 7 with 12 points - only 0.00% unknown
deleting segment 8 with 14 points - only 0.00% unknown
removing 1 vertex label from ripped group
deleting segment 10 with 5 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 11 with 2 points - only 0.00% unknown
deleting segment 12 with 5 points - only 0.00% unknown
mean border=86.4, 300 (33) missing vertices, mean dist -0.1 [0.3 (%55.7)->0.2 (%44.3))]
%81 local maxima, %15 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=0.2, host=c139., nav=0, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
writing white matter surface to /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white...
writing smoothed curvature to rh.curv
000: dt: 0.0000, sse=851212.7, rms=2.046
rms = 2.16, time step reduction 1 of 3 to 0.250...
028: dt: 0.2500, sse=793683.9, rms=1.494 (26.979%)
029: dt: 0.2500, sse=775693.6, rms=1.192 (20.224%)
rms = 1.22, time step reduction 2 of 3 to 0.125...
rms = 1.16, time step reduction 3 of 3 to 0.062...
030: dt: 0.1250, sse=766103.8, rms=1.156 (3.048%)
positioning took 0.7 minutes
generating cortex label...
12 non-cortical segments detected
only using segment with 7017 vertices
erasing segment 1 (vno[0] = 49173)
erasing segment 2 (vno[0] = 71777)
erasing segment 3 (vno[0] = 85718)
erasing segment 4 (vno[0] = 92375)
erasing segment 5 (vno[0] = 104704)
erasing segment 6 (vno[0] = 105660)
erasing segment 7 (vno[0] = 105704)
erasing segment 8 (vno[0] = 110791)
erasing segment 9 (vno[0] = 113383)
erasing segment 10 (vno[0] = 116667)
erasing segment 11 (vno[0] = 150661)
writing cortex label to /study2/emowrap/data/freesurfer/subjects/066/label/rh.cortex.label...
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/rh.curv
writing smoothed area to rh.area
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/rh.area
vertex spacing 0.89 +- 0.27 (0.01-->5.20) (max @ vno 518 --> 149435)
face area 0.33 +- 0.17 (0.00-->5.81)
repositioning cortical surface to gray/csf boundary.
smoothing T1 volume with sigma = 2.000
averaging target values for 5 iterations...
inhibiting deformation at non-cortical midline structures...
deleting segment 1 with 6 points - only 0.00% unknown
deleting segment 2 with 5 points - only 0.00% unknown
smoothing surface for 5 iterations...
reading initial pial vertex positions from white.preaparc...
mean border=51.7, 414 (414) missing vertices, mean dist 1.9 [1.1 (%0.1)->2.3 (%99.9))]
%18 local maxima, %59 large gradients and %19 min vals, 113 gradients ignored
perforing initial smooth deformation to move away from white surface
tol=1.0e-04, sigma=2.0, host=c139., nav=16, nbrs=2, l_surf_repulse=1.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.05
000: dt: 0.0000, sse=36749372.0, rms=35.241
001: dt: 0.0500, sse=32745164.0, rms=33.225 (5.720%)
002: dt: 0.0500, sse=29862712.0, rms=31.694 (4.607%)
003: dt: 0.0500, sse=27638796.0, rms=30.461 (3.892%)
004: dt: 0.0500, sse=25825850.0, rms=29.417 (3.427%)
005: dt: 0.0500, sse=24294494.0, rms=28.505 (3.099%)
006: dt: 0.0500, sse=22962226.0, rms=27.688 (2.868%)
007: dt: 0.0500, sse=21779918.0, rms=26.941 (2.695%)
008: dt: 0.0500, sse=20715700.0, rms=26.251 (2.561%)
009: dt: 0.0500, sse=19744606.0, rms=25.606 (2.460%)
010: dt: 0.0500, sse=18851646.0, rms=24.997 (2.377%)
positioning took 1.7 minutes
mean border=51.5, 275 (179) missing vertices, mean dist 1.5 [0.3 (%0.2)->1.8 (%99.8))]
%19 local maxima, %59 large gradients and %18 min vals, 105 gradients ignored
tol=1.0e-04, sigma=2.0, host=c139., nav=16, nbrs=2, l_surf_repulse=1.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.05
000: dt: 0.0000, sse=19862986.0, rms=25.670
011: dt: 0.0500, sse=19027698.0, rms=25.104 (2.207%)
012: dt: 0.0500, sse=18252998.0, rms=24.566 (2.140%)
013: dt: 0.0500, sse=17533102.0, rms=24.056 (2.076%)
014: dt: 0.0500, sse=16862784.0, rms=23.572 (2.015%)
015: dt: 0.0500, sse=16238535.0, rms=23.111 (1.954%)
016: dt: 0.0500, sse=15658266.0, rms=22.674 (1.889%)
017: dt: 0.0500, sse=15116429.0, rms=22.259 (1.833%)
018: dt: 0.0500, sse=14611443.0, rms=21.864 (1.772%)
019: dt: 0.0500, sse=14138833.0, rms=21.489 (1.719%)
020: dt: 0.0500, sse=13696932.0, rms=21.131 (1.663%)
positioning took 1.7 minutes
mean border=51.2, 264 (133) missing vertices, mean dist 1.2 [0.1 (%1.7)->1.5 (%98.3))]
%19 local maxima, %59 large gradients and %18 min vals, 94 gradients ignored
tol=1.0e-04, sigma=2.0, host=c139., nav=16, nbrs=2, l_surf_repulse=1.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.05
000: dt: 0.0000, sse=13874068.0, rms=21.277
021: dt: 0.0500, sse=13435038.0, rms=20.919 (1.686%)
022: dt: 0.0500, sse=13026422.0, rms=20.579 (1.623%)
023: dt: 0.0500, sse=12635864.0, rms=20.249 (1.603%)
024: dt: 0.0500, sse=12270299.0, rms=19.936 (1.549%)
025: dt: 0.0500, sse=11928282.0, rms=19.638 (1.495%)
026: dt: 0.0500, sse=11607714.0, rms=19.354 (1.444%)
027: dt: 0.0500, sse=11302170.0, rms=19.080 (1.417%)
028: dt: 0.0500, sse=11005209.0, rms=18.809 (1.418%)
029: dt: 0.0500, sse=10716932.0, rms=18.543 (1.416%)
030: dt: 0.0500, sse=10436824.0, rms=18.280 (1.416%)
positioning took 1.7 minutes
mean border=51.1, 298 (110) missing vertices, mean dist 0.9 [0.1 (%13.2)->1.3 (%86.8))]
%19 local maxima, %59 large gradients and %18 min vals, 103 gradients ignored
tol=1.0e-04, sigma=2.0, host=c139., nav=16, nbrs=2, l_surf_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 1.000
averaging target values for 5 iterations...
000: dt: 0.0000, sse=10614363.0, rms=18.444
031: dt: 0.5000, sse=8656557.0, rms=16.516 (10.450%)
032: dt: 0.5000, sse=7153515.5, rms=14.859 (10.035%)
033: dt: 0.5000, sse=5936978.0, rms=13.376 (9.981%)
034: dt: 0.5000, sse=4896508.0, rms=11.950 (10.656%)
035: dt: 0.5000, sse=4097252.5, rms=10.736 (10.165%)
036: dt: 0.5000, sse=3405257.8, rms=9.549 (11.050%)
037: dt: 0.5000, sse=2915374.8, rms=8.621 (9.718%)
038: dt: 0.5000, sse=2534668.2, rms=7.813 (9.379%)
039: dt: 0.5000, sse=2338738.5, rms=7.372 (5.647%)
040: dt: 0.5000, sse=2199159.2, rms=7.028 (4.656%)
041: dt: 0.5000, sse=2153861.0, rms=6.921 (1.522%)
042: dt: 0.5000, sse=2097009.9, rms=6.770 (2.183%)
rms = 6.77, time step reduction 1 of 3 to 0.250...
043: dt: 0.5000, sse=2093479.2, rms=6.767 (0.053%)
044: dt: 0.2500, sse=1708399.8, rms=5.646 (16.555%)
045: dt: 0.2500, sse=1600651.0, rms=5.311 (5.932%)
rms = 5.36, time step reduction 2 of 3 to 0.125...
046: dt: 0.1250, sse=1538934.4, rms=5.100 (3.973%)
047: dt: 0.1250, sse=1458583.2, rms=4.810 (5.689%)
048: dt: 0.1250, sse=1443079.5, rms=4.752 (1.208%)
rms = 4.74, time step reduction 3 of 3 to 0.062...
049: dt: 0.1250, sse=1439045.0, rms=4.737 (0.329%)
positioning took 3.9 minutes
mean border=49.2, 1830 (56) missing vertices, mean dist 0.1 [0.1 (%44.8)->0.4 (%55.2))]
%37 local maxima, %40 large gradients and %18 min vals, 45 gradients ignored
tol=1.0e-04, sigma=1.0, host=c139., nav=8, nbrs=2, l_surf_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 0.500
averaging target values for 5 iterations...
000: dt: 0.0000, sse=1972952.6, rms=5.860
rms = 6.47, time step reduction 1 of 3 to 0.250...
050: dt: 0.2500, sse=1699965.4, rms=4.977 (15.073%)
051: dt: 0.2500, sse=1600294.2, rms=4.607 (7.421%)
rms = 4.67, time step reduction 2 of 3 to 0.125...
052: dt: 0.1250, sse=1547586.6, rms=4.400 (4.507%)
053: dt: 0.1250, sse=1477192.4, rms=4.109 (6.606%)
054: dt: 0.1250, sse=1447662.2, rms=3.983 (3.063%)
055: dt: 0.1250, sse=1434833.8, rms=3.928 (1.377%)
rms = 3.90, time step reduction 3 of 3 to 0.062...
056: dt: 0.1250, sse=1428651.4, rms=3.902 (0.666%)
positioning took 1.8 minutes
mean border=47.6, 2021 (48) missing vertices, mean dist 0.1 [0.1 (%45.3)->0.3 (%54.7))]
%52 local maxima, %26 large gradients and %17 min vals, 53 gradients ignored
tol=1.0e-04, sigma=0.5, host=c139., nav=4, nbrs=2, l_surf_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 0.250
averaging target values for 5 iterations...
000: dt: 0.0000, sse=1627525.1, rms=4.717
rms = 5.98, time step reduction 1 of 3 to 0.250...
057: dt: 0.2500, sse=1491600.6, rms=4.184 (11.301%)
058: dt: 0.2500, sse=1465610.4, rms=4.076 (2.586%)
rms = 4.20, time step reduction 2 of 3 to 0.125...
059: dt: 0.1250, sse=1440322.5, rms=3.964 (2.736%)
060: dt: 0.1250, sse=1411029.8, rms=3.835 (3.274%)
061: dt: 0.1250, sse=1395850.0, rms=3.768 (1.747%)
rms = 3.74, time step reduction 3 of 3 to 0.062...
062: dt: 0.1250, sse=1389145.8, rms=3.739 (0.759%)
positioning took 1.6 minutes
mean border=46.6, 3254 (46) missing vertices, mean dist 0.1 [0.1 (%48.7)->0.2 (%51.3))]
%55 local maxima, %23 large gradients and %17 min vals, 39 gradients ignored
tol=1.0e-04, sigma=0.2, host=c139., nav=2, nbrs=2, l_surf_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
writing pial surface to /study2/emowrap/data/freesurfer/subjects/066/surf/rh.pial...
writing smoothed curvature to rh.curv.pial
000: dt: 0.0000, sse=1447689.8, rms=4.007
rms = 5.34, time step reduction 1 of 3 to 0.250...
063: dt: 0.2500, sse=1389653.9, rms=3.742 (6.612%)
rms = 3.70, time step reduction 2 of 3 to 0.125...
064: dt: 0.2500, sse=1378460.9, rms=3.701 (1.098%)
065: dt: 0.1250, sse=1350077.5, rms=3.562 (3.758%)
066: dt: 0.1250, sse=1330890.5, rms=3.471 (2.540%)
rms = 3.45, time step reduction 3 of 3 to 0.062...
067: dt: 0.1250, sse=1325324.6, rms=3.447 (0.714%)
positioning took 1.3 minutes
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/rh.curv.pial
writing smoothed area to rh.area.pial
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/rh.area.pial
vertex spacing 0.99 +- 0.42 (0.07-->8.10) (max @ vno 100129 --> 99003)
face area 0.39 +- 0.30 (0.00-->9.45)
measuring cortical thickness...
writing cortical thickness estimate to 'thickness' file.
0 of 151460 vertices processed
25000 of 151460 vertices processed
50000 of 151460 vertices processed
75000 of 151460 vertices processed
100000 of 151460 vertices processed
125000 of 151460 vertices processed
150000 of 151460 vertices processed
0 of 151460 vertices processed
25000 of 151460 vertices processed
50000 of 151460 vertices processed
75000 of 151460 vertices processed
100000 of 151460 vertices processed
125000 of 151460 vertices processed
150000 of 151460 vertices processed
thickness calculation complete, 102:426 truncations.
52394 vertices at 0 distance
122880 vertices at 1 distance
79034 vertices at 2 distance
26184 vertices at 3 distance
7241 vertices at 4 distance
2019 vertices at 5 distance
665 vertices at 6 distance
221 vertices at 7 distance
105 vertices at 8 distance
37 vertices at 9 distance
33 vertices at 10 distance
14 vertices at 11 distance
9 vertices at 12 distance
4 vertices at 13 distance
2 vertices at 14 distance
5 vertices at 15 distance
11 vertices at 16 distance
11 vertices at 17 distance
4 vertices at 18 distance
14 vertices at 19 distance
13 vertices at 20 distance
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/rh.thickness
positioning took 26.0 minutes
#--------------------------------------------
#@# Surf Volume lh Fri Jan 10 23:02:06 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/surf
/study2/emowrap/data/freesurfer/subjects/066/surf
mris_calc -o lh.area.mid lh.area add lh.area.pial
Saving result to 'lh.area.mid' (type = MRI_CURV_FILE)                       [ ok ]
mris_calc -o lh.area.mid lh.area.mid div 2
Saving result to 'lh.area.mid' (type = MRI_CURV_FILE)                       [ ok ]
mris_convert --volume 066 lh /study2/emowrap/data/freesurfer/subjects/066/surf/lh.volume
masking with /study2/emowrap/data/freesurfer/subjects/066/label/lh.cortex.label
Total face volume 239714
Total vertex volume 236277 (mask=0)
#@# 066 lh 236277

vertexvol Done
#--------------------------------------------
#@# Surf Volume rh Fri Jan 10 23:02:13 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/surf
/study2/emowrap/data/freesurfer/subjects/066/surf
mris_calc -o rh.area.mid rh.area add rh.area.pial
Saving result to 'rh.area.mid' (type = MRI_CURV_FILE)                       [ ok ]
mris_calc -o rh.area.mid rh.area.mid div 2
Saving result to 'rh.area.mid' (type = MRI_CURV_FILE)                       [ ok ]
mris_convert --volume 066 rh /study2/emowrap/data/freesurfer/subjects/066/surf/rh.volume
masking with /study2/emowrap/data/freesurfer/subjects/066/label/rh.cortex.label
Total face volume 245665
Total vertex volume 242468 (mask=0)
#@# 066 rh 242468

vertexvol Done
#--------------------------------------------
#@# Cortical ribbon mask Fri Jan 10 23:02:19 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/mri

 mris_volmask --aseg_name aseg.presurf --label_left_white 2 --label_left_ribbon 3 --label_right_white 41 --label_right_ribbon 42 --save_ribbon 066

SUBJECTS_DIR is /study2/emowrap/data/freesurfer/subjects
loading input data...
computing distance to left white surface
computing distance to left pial surface
computing distance to right white surface
computing distance to right pial surface
 hemi masks overlap voxels = 115
writing volume /study2/emowrap/data/freesurfer/subjects/066/mri/ribbon.mgz
mris_volmask took 23.17 minutes
 writing ribbon files
#-----------------------------------------
#@# Parcellation Stats lh Fri Jan 10 23:25:30 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_anatomical_stats -th3 -mgz -cortex ../label/lh.cortex.label -f ../stats/lh.aparc.stats -b -a ../label/lh.aparc.annot -c ../label/aparc.annot.ctab 066 lh white

computing statistics for each annotation in ../label/lh.aparc.annot.
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/wm.mgz...
reading input surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white...
reading input pial surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.pial...
reading input white surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white...
INFO: using TH3 volume calc
INFO: assuming MGZ format for volumes.
INFO: using ../label/lh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness.
Using TH3 vertex volume calc
Total face volume 239714
Total vertex volume 236277 (mask=0)
reading colortable from annotation file...
colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
Saving annotation colortable ../label/aparc.annot.ctab

table columns are:
    number of vertices
    total surface area (mm^2)
    total gray matter volume (mm^3)
    average cortical thickness +- standard deviation (mm)
    integrated rectified mean curvature
    integrated rectified Gaussian curvature
    folding index
    intrinsic curvature index
    structure name

atlas_icv (eTIV) = 1534407 mm^3    (det: 1.269614 )
lhCtxGM: 233824.049 233961.000  diff= -137.0  pctdiff=-0.059
rhCtxGM: 241862.704 241136.000  diff=  726.7  pctdiff= 0.300
lhCtxWM: 200251.579 200297.000  diff=  -45.4  pctdiff=-0.023
rhCtxWM: 224084.947 226662.000  diff=-2577.1  pctdiff=-1.150
SubCortGMVol  52283.000
SupraTentVol  979052.281 (978627.000) diff=425.281 pctdiff=0.043
SupraTentVolNotVent  955192.281 (954767.000) diff=425.281 pctdiff=0.045
BrainSegVol  1109780.000 (1106890.000) diff=2890.000 pctdiff=0.260
BrainSegVolNotVent  1081878.000 (1079790.281) diff=2087.719 pctdiff=0.193
BrainSegVolNotVent  1081878.000
CerebellumVol 127056.000
VentChorVol   23860.000
3rd4th5thCSF   4042.000
CSFVol  1153.000, OptChiasmVol    54.000
MaskVol 1582486.000
 1293    902   2189  2.466 0.397     0.086     0.014        5     0.8  bankssts
  764    646    510  1.094 0.845     0.208     0.094       28     2.9  caudalanteriorcingulate
 4216   2652   6708  2.302 0.571     0.123     0.061      128    14.1  caudalmiddlefrontal
 2690   1641   3894  2.047 0.593     0.135     0.032       37     3.6  cuneus
  802    564   2117  2.989 0.786     0.125     0.031        9     1.0  entorhinal
 4148   2816   8598  2.650 0.615     0.128     0.029       59     4.6  fusiform
 9194   6258  16466  2.333 0.512     0.123     0.029      126    10.7  inferiorparietal
 6378   4196  11919  2.421 0.735     0.138     0.050      112    14.3  inferiortemporal
 1571   1004   2404  2.194 0.671     0.127     0.034       23     1.9  isthmuscingulate
 7120   4461  10084  2.013 0.659     0.136     0.035       98    10.6  lateraloccipital
 4911   3194   7682  2.208 0.657     0.125     0.042       68     9.2  lateralorbitofrontal
 6087   3663   8188  2.045 0.631     0.125     0.035       83     8.0  lingual
 3196   2120   5093  2.171 0.644     0.126     0.041       55     5.4  medialorbitofrontal
 5549   3698  12427  2.707 0.677     0.129     0.031       74     7.3  middletemporal
  897    593   1749  2.532 0.692     0.108     0.025       11     0.9  parahippocampal
 2102   1226   3254  2.438 0.734     0.098     0.028       17     2.4  paracentral
 2308   1691   4864  2.438 0.467     0.128     0.031       41     2.7  parsopercularis
 1127    698   2086  2.269 0.731     0.165     0.069       26     3.4  parsorbitalis
 1487   1054   2628  2.197 0.541     0.129     0.027       19     1.7  parstriangularis
 2534   1660   2969  1.910 0.574     0.115     0.028       22     3.1  pericalcarine
 6062   3594   8214  2.061 0.543     0.099     0.026       62     6.5  postcentral
 1469   1009   2373  2.188 0.604     0.141     0.034       26     1.9  posteriorcingulate
 7546   4580  12079  2.448 0.558     0.105     0.032       88    10.4  precentral
 6126   4138   9827  2.246 0.469     0.126     0.025       74     6.3  precuneus
 1540   1072   2385  1.999 1.058     0.130     0.041       29     2.8  rostralanteriorcingulate
 8205   5532  14235  2.165 0.564     0.140     0.045      144    15.4  rostralmiddlefrontal
13652  10901  26610  2.265 0.738     0.143     0.039      232    23.2  superiorfrontal
 9536   6208  14983  2.142 0.521     0.113     0.027      116    10.6  superiorparietal
 4843   3496  10695  2.585 0.687     0.119     0.029       55     6.0  superiortemporal
 4500   3090   8273  2.391 0.529     0.132     0.033       68     6.2  supramarginal
  263    184    732  2.665 0.667     0.147     0.051        4     0.5  frontalpole
  660    475   2388  3.381 0.645     0.141     0.041       10     1.1  temporalpole
  639    391   1081  2.532 0.445     0.114     0.028        8     0.6  transversetemporal
 3402   2329   6541  2.623 0.814     0.127     0.046       51     6.8  insula

 mris_anatomical_stats -th3 -mgz -cortex ../label/lh.cortex.label -f ../stats/lh.aparc.pial.stats -b -a ../label/lh.aparc.annot -c ../label/aparc.annot.ctab 066 lh pial

computing statistics for each annotation in ../label/lh.aparc.annot.
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/wm.mgz...
reading input surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.pial...
reading input pial surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.pial...
reading input white surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white...
INFO: using TH3 volume calc
INFO: assuming MGZ format for volumes.
INFO: using ../label/lh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness.
Using TH3 vertex volume calc
Total face volume 239714
Total vertex volume 236277 (mask=0)
reading colortable from annotation file...
colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
Saving annotation colortable ../label/aparc.annot.ctab

table columns are:
    number of vertices
    total surface area (mm^2)
    total gray matter volume (mm^3)
    average cortical thickness +- standard deviation (mm)
    integrated rectified mean curvature
    integrated rectified Gaussian curvature
    folding index
    intrinsic curvature index
    structure name

atlas_icv (eTIV) = 1534407 mm^3    (det: 1.269614 )
lhCtxGM: 233824.049 233961.000  diff= -137.0  pctdiff=-0.059
rhCtxGM: 241862.704 241136.000  diff=  726.7  pctdiff= 0.300
lhCtxWM: 200251.579 200297.000  diff=  -45.4  pctdiff=-0.023
rhCtxWM: 224084.947 226662.000  diff=-2577.1  pctdiff=-1.150
SubCortGMVol  52283.000
SupraTentVol  979052.281 (978627.000) diff=425.281 pctdiff=0.043
SupraTentVolNotVent  955192.281 (954767.000) diff=425.281 pctdiff=0.045
BrainSegVol  1109780.000 (1106890.000) diff=2890.000 pctdiff=0.260
BrainSegVolNotVent  1081878.000 (1079790.281) diff=2087.719 pctdiff=0.193
BrainSegVolNotVent  1081878.000
CerebellumVol 127056.000
VentChorVol   23860.000
3rd4th5thCSF   4042.000
CSFVol  1153.000, OptChiasmVol    54.000
MaskVol 1582486.000
 1293    837   2189  2.466 0.397     0.098     0.019        9     1.0  bankssts
  764    598    510  1.094 0.845     0.188     0.102       26     2.4  caudalanteriorcingulate
 4216   3008   6708  2.302 0.571     0.116     0.028       55     4.6  caudalmiddlefrontal
 2690   2168   3894  2.047 0.593     0.145     0.032       41     3.7  cuneus
  802    802   2117  2.989 0.786     0.156     0.034       14     1.3  entorhinal
 4148   3590   8598  2.650 0.615     0.146     0.034       59     6.3  fusiform
 9194   7660  16466  2.333 0.512     0.139     0.031      111    12.6  inferiorparietal
 6378   5181  11919  2.421 0.735     0.137     0.035      108    10.0  inferiortemporal
 1571   1207   2404  2.194 0.671     0.154     0.052       58     2.6  isthmuscingulate
 7120   5584  10084  2.013 0.659     0.137     0.033      105    11.1  lateraloccipital
 4911   3569   7682  2.208 0.657     0.131     0.032       68     6.9  lateralorbitofrontal
 6087   4435   8188  2.045 0.631     0.130     0.032       69     8.8  lingual
 3196   2648   5093  2.171 0.644     0.141     0.036       42     4.9  medialorbitofrontal
 5549   5141  12427  2.707 0.677     0.146     0.030       67     7.4  middletemporal
  897    838   1749  2.532 0.692     0.152     0.034       10     1.5  parahippocampal
 2102   1468   3254  2.438 0.734     0.103     0.017       14     1.5  paracentral
 2308   2220   4864  2.438 0.467     0.157     0.029       25     3.0  parsopercularis
 1127    983   2086  2.269 0.731     0.159     0.043       14     2.0  parsorbitalis
 1487   1267   2628  2.197 0.541     0.160     0.033       21     2.2  parstriangularis
 2534   1546   2969  1.910 0.574     0.110     0.025       28     2.6  pericalcarine
 6062   4484   8214  2.061 0.543     0.111     0.022       46     5.0  postcentral
 1469   1211   2373  2.188 0.604     0.159     0.045       30     2.6  posteriorcingulate
 7546   5179  12079  2.448 0.558     0.106     0.024       73     7.9  precentral
 6126   4616   9827  2.246 0.469     0.133     0.029       70     7.5  precuneus
 1540   1469   2385  1.999 1.058     0.180     0.047       26     3.6  rostralanteriorcingulate
 8205   7200  14235  2.165 0.564     0.165     0.038      130    14.7  rostralmiddlefrontal
13652  13274  26610  2.265 0.738     0.159     0.034      173    21.2  superiorfrontal
 9536   7541  14983  2.142 0.521     0.127     0.026      107    10.0  superiorparietal
 4843   4471  10695  2.585 0.687     0.144     0.030       55     6.6  superiortemporal
 4500   3651   8273  2.391 0.529     0.145     0.032       56     5.9  supramarginal
  263    345    732  2.665 0.667     0.223     0.046        4     0.5  frontalpole
  660    908   2388  3.381 0.645     0.201     0.038        7     1.1  temporalpole
  639    487   1081  2.532 0.445     0.108     0.019        5     0.5  transversetemporal
 3402   2442   6541  2.623 0.814     0.143     0.055       67     6.6  insula
#-----------------------------------------
#@# Parcellation Stats rh Fri Jan 10 23:28:24 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_anatomical_stats -th3 -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.stats -b -a ../label/rh.aparc.annot -c ../label/aparc.annot.ctab 066 rh white

computing statistics for each annotation in ../label/rh.aparc.annot.
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/wm.mgz...
reading input surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white...
reading input pial surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.pial...
reading input white surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white...
INFO: using TH3 volume calc
INFO: assuming MGZ format for volumes.
INFO: using ../label/rh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness.
Using TH3 vertex volume calc
Total face volume 245665
Total vertex volume 242468 (mask=0)
reading colortable from annotation file...
colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
Saving annotation colortable ../label/aparc.annot.ctab

table columns are:
    number of vertices
    total surface area (mm^2)
    total gray matter volume (mm^3)
    average cortical thickness +- standard deviation (mm)
    integrated rectified mean curvature
    integrated rectified Gaussian curvature
    folding index
    intrinsic curvature index
    structure name

atlas_icv (eTIV) = 1534407 mm^3    (det: 1.269614 )
lhCtxGM: 233824.049 233961.000  diff= -137.0  pctdiff=-0.059
rhCtxGM: 241862.704 241136.000  diff=  726.7  pctdiff= 0.300
lhCtxWM: 200251.579 200297.000  diff=  -45.4  pctdiff=-0.023
rhCtxWM: 224084.947 226662.000  diff=-2577.1  pctdiff=-1.150
SubCortGMVol  52283.000
SupraTentVol  979052.281 (978627.000) diff=425.281 pctdiff=0.043
SupraTentVolNotVent  955192.281 (954767.000) diff=425.281 pctdiff=0.045
BrainSegVol  1109780.000 (1106890.000) diff=2890.000 pctdiff=0.260
BrainSegVolNotVent  1081878.000 (1079790.281) diff=2087.719 pctdiff=0.193
BrainSegVolNotVent  1081878.000
CerebellumVol 127056.000
VentChorVol   23860.000
3rd4th5thCSF   4042.000
CSFVol  1153.000, OptChiasmVol    54.000
MaskVol 1582486.000
 1411    948   1973  2.204 0.412     0.096     0.018        9     1.0  bankssts
 1632   1163   2718  1.847 0.877     0.146     0.051       44     4.5  caudalanteriorcingulate
 4289   2713   6946  2.257 0.592     0.121     0.039       55     7.7  caudalmiddlefrontal
 3137   1901   4076  1.884 0.528     0.135     0.034       47     4.2  cuneus
  640    424   1965  3.248 0.794     0.141     0.040        8     1.2  entorhinal
 4886   3287   9418  2.602 0.645     0.123     0.031       64     6.2  fusiform
 9900   6655  16707  2.253 0.480     0.122     0.030      134    11.6  inferiorparietal
 5793   3859  11610  2.567 0.780     0.136     0.046       93    11.3  inferiortemporal
 1492    956   2745  2.412 0.726     0.147     0.042       28     2.4  isthmuscingulate
 8132   5117  11676  2.057 0.622     0.133     0.038      111    12.7  lateraloccipital
 4602   3052   7400  2.218 0.728     0.145     0.050       77     9.7  lateralorbitofrontal
 6275   3955   7911  1.878 0.610     0.135     0.035       84     9.6  lingual
 2952   2134   5691  2.274 0.699     0.136     0.036       49     4.8  medialorbitofrontal
 5501   3711  11636  2.602 0.675     0.129     0.037       87     8.1  middletemporal
 1177    683   1855  2.424 0.605     0.085     0.018        8     0.6  parahippocampal
 2676   1514   4067  2.461 0.619     0.104     0.035       41     4.0  paracentral
 2352   1554   3963  2.322 0.510     0.120     0.030       28     2.6  parsopercularis
 1264    881   2587  2.272 0.685     0.132     0.029       17     1.5  parsorbitalis
 2824   1909   4638  2.155 0.510     0.132     0.037       38     4.2  parstriangularis
 2798   1873   2797  1.644 0.485     0.131     0.034       29     4.0  pericalcarine
 6276   3811   7920  1.885 0.571     0.099     0.030       67     8.5  postcentral
 2003   1443   3186  2.003 0.944     0.141     0.040       37     3.2  posteriorcingulate
 8516   4928  12750  2.448 0.607     0.108     0.032       95    11.7  precentral
 5693   3831   9861  2.399 0.540     0.122     0.026       63     5.9  precuneus
 1012    650   1752  2.434 0.993     0.130     0.045       21     1.9  rostralanteriorcingulate
11211   7412  17941  2.076 0.567     0.134     0.046      194    21.6  rostralmiddlefrontal
10547   7101  20793  2.506 0.593     0.122     0.034      137    14.6  superiorfrontal
 8907   5908  14691  2.157 0.554     0.121     0.029      109    10.6  superiorparietal
 4987   3454   9804  2.452 0.650     0.112     0.024       51     4.9  superiortemporal
 5243   3436   9196  2.405 0.497     0.118     0.028       65     5.9  supramarginal
  611    372    936  2.026 0.699     0.192     0.087       18     2.6  frontalpole
  586    469   2806  3.864 0.803     0.170     0.046       11     1.1  temporalpole
  653    312   1008  2.613 0.543     0.090     0.029        6     0.8  transversetemporal
 4086   2817   7428  2.549 0.849     0.118     0.039       46     5.8  insula

 mris_anatomical_stats -th3 -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.pial.stats -b -a ../label/rh.aparc.annot -c ../label/aparc.annot.ctab 066 rh pial

computing statistics for each annotation in ../label/rh.aparc.annot.
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/wm.mgz...
reading input surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.pial...
reading input pial surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.pial...
reading input white surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white...
INFO: using TH3 volume calc
INFO: assuming MGZ format for volumes.
INFO: using ../label/rh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness.
Using TH3 vertex volume calc
Total face volume 245665
Total vertex volume 242468 (mask=0)
reading colortable from annotation file...
colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
Saving annotation colortable ../label/aparc.annot.ctab

table columns are:
    number of vertices
    total surface area (mm^2)
    total gray matter volume (mm^3)
    average cortical thickness +- standard deviation (mm)
    integrated rectified mean curvature
    integrated rectified Gaussian curvature
    folding index
    intrinsic curvature index
    structure name

atlas_icv (eTIV) = 1534407 mm^3    (det: 1.269614 )
lhCtxGM: 233824.049 233961.000  diff= -137.0  pctdiff=-0.059
rhCtxGM: 241862.704 241136.000  diff=  726.7  pctdiff= 0.300
lhCtxWM: 200251.579 200297.000  diff=  -45.4  pctdiff=-0.023
rhCtxWM: 224084.947 226662.000  diff=-2577.1  pctdiff=-1.150
SubCortGMVol  52283.000
SupraTentVol  979052.281 (978627.000) diff=425.281 pctdiff=0.043
SupraTentVolNotVent  955192.281 (954767.000) diff=425.281 pctdiff=0.045
BrainSegVol  1109780.000 (1106890.000) diff=2890.000 pctdiff=0.260
BrainSegVolNotVent  1081878.000 (1079790.281) diff=2087.719 pctdiff=0.193
BrainSegVolNotVent  1081878.000
CerebellumVol 127056.000
VentChorVol   23860.000
3rd4th5thCSF   4042.000
CSFVol  1153.000, OptChiasmVol    54.000
MaskVol 1582486.000
 1411    846   1973  2.204 0.412     0.112     0.024       20     1.7  bankssts
 1632   1530   2718  1.847 0.877     0.165     0.044       24     3.5  caudalanteriorcingulate
 4289   3121   6946  2.257 0.592     0.121     0.027       45     4.9  caudalmiddlefrontal
 3137   2468   4076  1.884 0.528     0.131     0.031       43     4.0  cuneus
  640    739   1965  3.248 0.794     0.187     0.043        9     1.3  entorhinal
 4886   3883   9418  2.602 0.645     0.135     0.033       72     7.2  fusiform
 9900   7861  16707  2.253 0.480     0.133     0.030      117    13.8  inferiorparietal
 5793   4949  11610  2.567 0.780     0.143     0.048       90    14.1  inferiortemporal
 1492   1222   2745  2.412 0.726     0.157     0.045       38     2.6  isthmuscingulate
 8132   6203  11676  2.057 0.622     0.133     0.036      582    11.4  lateraloccipital
 4602   3494   7400  2.218 0.728     0.155     0.045       84     9.9  lateralorbitofrontal
 6275   4667   7911  1.878 0.610     0.128     0.031       92     9.6  lingual
 2952   2757   5691  2.274 0.699     0.164     0.039       46     5.2  medialorbitofrontal
 5501   4981  11636  2.602 0.675     0.147     0.041      230     9.3  middletemporal
 1177    863   1855  2.424 0.605     0.111     0.024       11     1.3  parahippocampal
 2676   1726   4067  2.461 0.619     0.103     0.028       40     3.6  paracentral
 2352   1755   3963  2.322 0.510     0.124     0.027       26     2.4  parsopercularis
 1264   1324   2587  2.272 0.685     0.172     0.033       16     1.8  parsorbitalis
 2824   2308   4638  2.155 0.510     0.149     0.032       34     3.8  parstriangularis
 2798   1607   2797  1.644 0.485     0.107     0.031       46     3.5  pericalcarine
 6276   4492   7920  1.885 0.571     0.103     0.020       63     5.7  postcentral
 2003   1615   3186  2.003 0.944     0.146     0.039       45     3.0  posteriorcingulate
 8516   5445  12750  2.448 0.607     0.096     0.026      147     6.7  precentral
 5693   4339   9861  2.399 0.540     0.134     0.030       66     7.2  precuneus
 1012    861   1752  2.434 0.993     0.192     0.050       26     2.4  rostralanteriorcingulate
11211   9319  17941  2.076 0.567     0.147     0.033      163    17.3  rostralmiddlefrontal
10547   8870  20793  2.506 0.593     0.138     0.032      191    14.5  superiorfrontal
 8907   7377  14691  2.157 0.554     0.138     0.027      106    10.2  superiorparietal
 4987   4323   9804  2.452 0.650     0.141     0.032       72     6.5  superiortemporal
 5243   4037   9196  2.405 0.497     0.123     0.027       49     5.6  supramarginal
  611    482    936  2.026 0.699     0.152     0.042        7     0.9  frontalpole
  586    978   2806  3.864 0.803     0.240     0.049        6     1.5  temporalpole
  653    445   1008  2.613 0.543     0.087     0.012        2     0.3  transversetemporal
 4086   2925   7428  2.549 0.849     0.140     0.040       63     7.0  insula
#-----------------------------------------
#@# Cortical Parc 2 lh Fri Jan 10 23:31:27 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 066 lh ../surf/lh.sphere.reg /apps/x86_64_sci7/freesurfer-6.0.0/average/lh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.a2009s.annot

setting seed for random number generator to 1234
using ../mri/aseg.presurf.mgz aseg volume to correct midline
$Id: mris_ca_label.c,v 1.37 2014/02/04 17:46:42 fischl Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading atlas from /apps/x86_64_sci7/freesurfer-6.0.0/average/lh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs...
reading color table from GCSA file....
average std = 2.9   using min determinant for regularization = 0.086
0 singular and 762 ill-conditioned covariance matrices regularized
input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature
labeling surface...
282 labels changed using aseg
relabeling using gibbs priors...
000:   9118 changed, 144820 examined...
001:   2092 changed, 35606 examined...
002:    622 changed, 10966 examined...
003:    248 changed, 3491 examined...
004:    118 changed, 1419 examined...
005:     53 changed, 679 examined...
006:     29 changed, 295 examined...
007:     13 changed, 166 examined...
008:      7 changed, 80 examined...
009:      4 changed, 35 examined...
010:      2 changed, 23 examined...
011:      2 changed, 16 examined...
012:      2 changed, 11 examined...
013:      2 changed, 15 examined...
014:      1 changed, 8 examined...
015:      0 changed, 5 examined...
141 labels changed using aseg
000: 271 total segments, 184 labels (2961 vertices) changed
001: 98 total segments, 12 labels (23 vertices) changed
002: 86 total segments, 0 labels (0 vertices) changed
10 filter iterations complete (10 requested, 36 changed)
rationalizing unknown annotations with cortex label
relabeling Medial_wall label...
1452 vertices marked for relabeling...
1452 labels changed in reclassification.
writing output to ../label/lh.aparc.a2009s.annot...
classification took 0 minutes and 34 seconds.
#-----------------------------------------
#@# Cortical Parc 2 rh Fri Jan 10 23:32:01 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 066 rh ../surf/rh.sphere.reg /apps/x86_64_sci7/freesurfer-6.0.0/average/rh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/rh.aparc.a2009s.annot

setting seed for random number generator to 1234
using ../mri/aseg.presurf.mgz aseg volume to correct midline
$Id: mris_ca_label.c,v 1.37 2014/02/04 17:46:42 fischl Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading atlas from /apps/x86_64_sci7/freesurfer-6.0.0/average/rh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs...
reading color table from GCSA file....
average std = 1.4   using min determinant for regularization = 0.020
0 singular and 719 ill-conditioned covariance matrices regularized
input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature
labeling surface...
0 labels changed using aseg
relabeling using gibbs priors...
000:   9617 changed, 151460 examined...
001:   2140 changed, 37500 examined...
002:    663 changed, 11269 examined...
003:    240 changed, 3698 examined...
004:    120 changed, 1387 examined...
005:     60 changed, 702 examined...
006:     25 changed, 376 examined...
007:     11 changed, 151 examined...
008:      6 changed, 72 examined...
009:      3 changed, 35 examined...
010:      2 changed, 20 examined...
011:      1 changed, 14 examined...
012:      2 changed, 7 examined...
013:      0 changed, 10 examined...
1 labels changed using aseg
000: 307 total segments, 214 labels (2409 vertices) changed
001: 109 total segments, 16 labels (104 vertices) changed
002: 95 total segments, 2 labels (14 vertices) changed
003: 93 total segments, 0 labels (0 vertices) changed
10 filter iterations complete (10 requested, 30 changed)
rationalizing unknown annotations with cortex label
relabeling Medial_wall label...
2282 vertices marked for relabeling...
2282 labels changed in reclassification.
writing output to ../label/rh.aparc.a2009s.annot...
classification took 0 minutes and 40 seconds.
#-----------------------------------------
#@# Parcellation Stats 2 lh Fri Jan 10 23:32:41 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_anatomical_stats -th3 -mgz -cortex ../label/lh.cortex.label -f ../stats/lh.aparc.a2009s.stats -b -a ../label/lh.aparc.a2009s.annot -c ../label/aparc.annot.a2009s.ctab 066 lh white

computing statistics for each annotation in ../label/lh.aparc.a2009s.annot.
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/wm.mgz...
reading input surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white...
reading input pial surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.pial...
reading input white surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white...
INFO: using TH3 volume calc
INFO: assuming MGZ format for volumes.
INFO: using ../label/lh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness.
Using TH3 vertex volume calc
Total face volume 239714
Total vertex volume 236277 (mask=0)
reading colortable from annotation file...
colortable with 76 entries read (originally Simple_surface_labels2008.txt)
Saving annotation colortable ../label/aparc.annot.a2009s.ctab

table columns are:
    number of vertices
    total surface area (mm^2)
    total gray matter volume (mm^3)
    average cortical thickness +- standard deviation (mm)
    integrated rectified mean curvature
    integrated rectified Gaussian curvature
    folding index
    intrinsic curvature index
    structure name

atlas_icv (eTIV) = 1534407 mm^3    (det: 1.269614 )
lhCtxGM: 233824.049 233961.000  diff= -137.0  pctdiff=-0.059
rhCtxGM: 241862.704 241136.000  diff=  726.7  pctdiff= 0.300
lhCtxWM: 200251.579 200297.000  diff=  -45.4  pctdiff=-0.023
rhCtxWM: 224084.947 226662.000  diff=-2577.1  pctdiff=-1.150
SubCortGMVol  52283.000
SupraTentVol  979052.281 (978627.000) diff=425.281 pctdiff=0.043
SupraTentVolNotVent  955192.281 (954767.000) diff=425.281 pctdiff=0.045
BrainSegVol  1109780.000 (1106890.000) diff=2890.000 pctdiff=0.260
BrainSegVolNotVent  1081878.000 (1079790.281) diff=2087.719 pctdiff=0.193
BrainSegVolNotVent  1081878.000
CerebellumVol 127056.000
VentChorVol   23860.000
3rd4th5thCSF   4042.000
CSFVol  1153.000, OptChiasmVol    54.000
MaskVol 1582486.000
 1145    764   1840  2.004 0.539     0.151     0.055       28     2.8  G&S_frontomargin
 1396    905   2537  2.433 0.716     0.132     0.032       17     1.5  G&S_occipital_inf
 1595    820   2246  2.320 0.581     0.107     0.038       21     2.4  G&S_paracentral
 1343    899   2876  2.619 0.488     0.133     0.041       21     2.1  G&S_subcentral
  643    438   1439  2.287 0.663     0.161     0.051       16     1.2  G&S_transv_frontopol
 2901   2610   4370  1.747 0.819     0.151     0.051       58     6.7  G&S_cingul-Ant
 2059   2174   2929  1.437 0.826     0.184     0.048       45     4.4  G&S_cingul-Mid-Ant
 1571   1143   2661  2.234 0.467     0.128     0.030       22     1.6  G&S_cingul-Mid-Post
  529    369   1377  2.649 0.474     0.151     0.035       10     0.9  G_cingul-Post-dorsal
  437    250    661  2.251 0.616     0.129     0.051        8     0.7  G_cingul-Post-ventral
 2577   1432   3772  2.097 0.664     0.129     0.036       39     4.0  G_cuneus
 1486   1075   3447  2.497 0.439     0.143     0.038       36     2.3  G_front_inf-Opercular
  469    259    844  2.284 0.565     0.133     0.049        9     1.0  G_front_inf-Orbital
  760    539   1885  2.580 0.492     0.146     0.039       15     1.0  G_front_inf-Triangul
 5391   3308  10174  2.347 0.570     0.142     0.055      110    13.0  G_front_middle
 8409   5858  18386  2.572 0.690     0.141     0.042      167    15.3  G_front_sup
  674    439   1333  2.578 0.789     0.155     0.065       17     1.9  G_Ins_lg&S_cent_ins
  711    451   2118  3.084 0.983     0.145     0.060       15     1.7  G_insular_short
 2382   1471   4921  2.477 0.575     0.134     0.038       45     3.6  G_occipital_middle
 1656    981   2408  2.094 0.640     0.120     0.031       20     2.0  G_occipital_sup
 1832   1142   4228  2.844 0.493     0.128     0.028       33     1.9  G_oc-temp_lat-fusifor
 4411   2425   5908  2.017 0.674     0.133     0.041       74     6.8  G_oc-temp_med-Lingual
 1420    950   3675  2.979 0.763     0.126     0.034       21     1.7  G_oc-temp_med-Parahip
 3018   1864   5311  2.160 0.778     0.153     0.066       70     9.1  G_orbital
 3717   2478   7630  2.454 0.556     0.138     0.035       65     4.9  G_pariet_inf-Angular
 2243   1483   4912  2.585 0.470     0.139     0.038       44     3.7  G_pariet_inf-Supramar
 4231   2720   7762  2.301 0.571     0.124     0.033       70     5.6  G_parietal_sup
 2459   1232   3277  2.143 0.521     0.101     0.030       31     3.2  G_postcentral
 3223   1660   5444  2.565 0.626     0.114     0.045       60     6.7  G_precentral
 2950   1914   5702  2.362 0.452     0.140     0.031       53     3.7  G_precuneus
 1196    774   2161  2.174 0.583     0.146     0.047       25     2.2  G_rectus
  930    591   1533  2.653 0.888     0.117     0.059       14     2.1  G_subcallosal
  476    281    945  2.603 0.513     0.111     0.031        7     0.5  G_temp_sup-G_T_transv
 1769   1222   5566  3.009 0.700     0.141     0.042       33     3.2  G_temp_sup-Lateral
  566    376   1364  2.954 0.704     0.088     0.020        3     0.4  G_temp_sup-Plan_polar
  779    551   1421  2.334 0.587     0.101     0.023        8     0.7  G_temp_sup-Plan_tempo
 3678   2310   7520  2.436 0.850     0.163     0.069       92    11.8  G_temporal_inf
 3205   2074   8234  2.863 0.673     0.137     0.038       54     5.0  G_temporal_middle
  252    178    280  1.748 0.432     0.131     0.020        2     0.2  Lat_Fis-ant-Horizont
  212    173    313  2.007 0.390     0.116     0.019        1     0.2  Lat_Fis-ant-Vertical
 1027    729   1293  2.130 0.512     0.106     0.020        5     0.9  Lat_Fis-post
 2078   1218   2374  1.718 0.550     0.148     0.052       32     4.8  Pole_occipital
 1774   1254   5376  3.061 0.797     0.150     0.049       32     3.7  Pole_temporal
 3195   2209   3909  2.004 0.561     0.110     0.022       24     3.1  S_calcarine
 2858   1977   3530  2.028 0.529     0.089     0.019       14     2.3  S_central
 1088    787   1396  1.945 0.434     0.109     0.016        7     0.8  S_cingul-Marginalis
  564    396    826  2.318 0.589     0.100     0.033        4     0.9  S_circular_insula_ant
 1355   1046   2316  2.497 0.688     0.098     0.030       13     2.3  S_circular_insula_inf
 1708   1216   2292  2.217 0.475     0.111     0.023        8     1.8  S_circular_insula_sup
  897    647   1323  2.184 0.503     0.105     0.012        5     0.4  S_collat_transv_ant
  518    346    633  2.001 0.446     0.154     0.044        7     1.1  S_collat_transv_post
 1844   1355   2921  2.166 0.508     0.119     0.025       15     2.1  S_front_inf
 1550   1144   2172  2.042 0.506     0.126     0.027       12     1.9  S_front_middle
 3536   2394   5562  2.245 0.514     0.111     0.053      102    10.1  S_front_sup
  143    102    263  2.614 0.447     0.162     0.043        2     0.3  S_interm_prim-Jensen
 3737   2591   5001  1.999 0.374     0.094     0.014       22     2.1  S_intrapariet&P_trans
  822    576    830  1.669 0.339     0.115     0.019        6     0.7  S_oc_middle&Lunatus
 1559   1126   1988  1.913 0.430     0.116     0.021       12     1.4  S_oc_sup&transversal
  571    401    835  2.201 0.503     0.110     0.016        4     0.4  S_occipital_ant
  905    631   1372  2.433 0.386     0.108     0.019        6     0.6  S_oc-temp_lat
 2101   1532   3054  2.208 0.493     0.111     0.020       15     1.7  S_oc-temp_med&Lingual
  256    199    313  1.666 0.358     0.136     0.021        1     0.3  S_orbital_lateral
 1046    730   1264  2.001 0.470     0.104     0.016        6     0.7  S_orbital_med-olfact
 1715   1158   2776  2.368 0.538     0.117     0.027       17     1.9  S_orbital-H_Shaped
 2568   1721   3433  2.136 0.463     0.114     0.021       21     2.2  S_parieto_occipital
  917    602    779  1.624 0.672     0.118     0.030       14     1.0  S_pericallosal
 2588   1774   3279  1.938 0.450     0.120     0.027       27     3.0  S_postcentral
 1632   1138   2568  2.350 0.458     0.096     0.018        8     1.1  S_precentral-inf-part
 1335    922   1931  2.269 0.434     0.094     0.019        7     1.0  S_precentral-sup-part
  809    572   1087  1.883 0.460     0.125     0.024       11     0.8  S_suborbital
 1062    765   1422  2.120 0.400     0.125     0.026        8     1.2  S_subparietal
 2034   1420   2897  2.301 0.433     0.105     0.017       11     1.5  S_temporal_inf
 6028   4251   9367  2.323 0.436     0.105     0.020       50     5.1  S_temporal_sup
  314    236    483  2.324 0.360     0.105     0.014        2     0.2  S_temporal_transverse
#-----------------------------------------
#@# Parcellation Stats 2 rh Fri Jan 10 23:34:03 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_anatomical_stats -th3 -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.a2009s.stats -b -a ../label/rh.aparc.a2009s.annot -c ../label/aparc.annot.a2009s.ctab 066 rh white

computing statistics for each annotation in ../label/rh.aparc.a2009s.annot.
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/wm.mgz...
reading input surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white...
reading input pial surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.pial...
reading input white surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white...
INFO: using TH3 volume calc
INFO: assuming MGZ format for volumes.
INFO: using ../label/rh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness.
Using TH3 vertex volume calc
Total face volume 245665
Total vertex volume 242468 (mask=0)
reading colortable from annotation file...
colortable with 76 entries read (originally Simple_surface_labels2008.txt)
Saving annotation colortable ../label/aparc.annot.a2009s.ctab

table columns are:
    number of vertices
    total surface area (mm^2)
    total gray matter volume (mm^3)
    average cortical thickness +- standard deviation (mm)
    integrated rectified mean curvature
    integrated rectified Gaussian curvature
    folding index
    intrinsic curvature index
    structure name

atlas_icv (eTIV) = 1534407 mm^3    (det: 1.269614 )
lhCtxGM: 233824.049 233961.000  diff= -137.0  pctdiff=-0.059
rhCtxGM: 241862.704 241136.000  diff=  726.7  pctdiff= 0.300
lhCtxWM: 200251.579 200297.000  diff=  -45.4  pctdiff=-0.023
rhCtxWM: 224084.947 226662.000  diff=-2577.1  pctdiff=-1.150
SubCortGMVol  52283.000
SupraTentVol  979052.281 (978627.000) diff=425.281 pctdiff=0.043
SupraTentVolNotVent  955192.281 (954767.000) diff=425.281 pctdiff=0.045
BrainSegVol  1109780.000 (1106890.000) diff=2890.000 pctdiff=0.260
BrainSegVolNotVent  1081878.000 (1079790.281) diff=2087.719 pctdiff=0.193
BrainSegVolNotVent  1081878.000
CerebellumVol 127056.000
VentChorVol   23860.000
3rd4th5thCSF   4042.000
CSFVol  1153.000, OptChiasmVol    54.000
MaskVol 1582486.000
 1125    779   1653  1.960 0.534     0.144     0.058       25     2.5  G&S_frontomargin
 1398    879   2096  2.240 0.579     0.129     0.037       15     2.1  G&S_occipital_inf
 1686    880   2393  2.370 0.679     0.109     0.046       21     3.4  G&S_paracentral
 1348    895   2636  2.540 0.482     0.122     0.031       20     1.9  G&S_subcentral
 1616   1020   2506  1.989 0.571     0.156     0.053       34     3.6  G&S_transv_frontopol
 2962   2108   5090  2.238 0.665     0.128     0.038       57     5.5  G&S_cingul-Ant
 1378   1033   2929  2.481 0.522     0.118     0.027       13     1.6  G&S_cingul-Mid-Ant
 1306    907   2500  2.569 0.479     0.108     0.024       12     1.2  G&S_cingul-Mid-Post
  505    356   1559  2.930 0.389     0.157     0.030       10     0.7  G_cingul-Post-dorsal
  399    223    670  2.479 0.660     0.144     0.054        8     0.8  G_cingul-Post-ventral
 2912   1783   3779  1.834 0.534     0.133     0.035       40     4.0  G_cuneus
 1542    982   3175  2.434 0.519     0.136     0.040       26     2.3  G_front_inf-Opercular
  334    227    727  2.351 0.424     0.141     0.043        6     0.5  G_front_inf-Orbital
 1453    918   2732  2.318 0.511     0.145     0.052       26     3.0  G_front_inf-Triangul
 5357   3133   9736  2.254 0.646     0.148     0.065      128    15.7  G_front_middle
 7213   4641  16471  2.707 0.603     0.135     0.045      145    13.2  G_front_sup
  645    443   1512  3.086 0.591     0.108     0.027        5     0.7  G_Ins_lg&S_cent_ins
  891    587   2137  2.887 0.952     0.159     0.066       19     2.3  G_insular_short
 3013   1915   6344  2.446 0.612     0.134     0.041       58     4.8  G_occipital_middle
 1821   1118   3449  2.259 0.684     0.134     0.034       29     2.6  G_occipital_sup
 2443   1482   4999  2.651 0.712     0.141     0.045       48     4.6  G_oc-temp_lat-fusifor
 4135   2445   5063  1.813 0.609     0.136     0.039       62     7.2  G_oc-temp_med-Lingual
 1425    869   3456  2.930 0.836     0.115     0.036       14     1.8  G_oc-temp_med-Parahip
 3174   2028   6491  2.331 0.811     0.155     0.061       68     8.0  G_orbital
 3470   2204   6538  2.326 0.529     0.132     0.037       65     5.0  G_pariet_inf-Angular
 2321   1479   4852  2.575 0.535     0.127     0.037       40     3.2  G_pariet_inf-Supramar
 2890   1882   5641  2.265 0.612     0.131     0.035       49     4.4  G_parietal_sup
 2417   1265   3018  1.871 0.544     0.106     0.040       37     4.2  G_postcentral
 3596   1717   5739  2.594 0.673     0.111     0.045       55     6.8  G_precentral
 2785   1802   5636  2.413 0.572     0.138     0.034       47     3.9  G_precuneus
  784    565   1815  2.335 0.641     0.156     0.065       20     2.3  G_rectus
  812    495   1022  2.053 1.084     0.101     0.043        9     0.9  G_subcallosal
  506    234    894  2.790 0.632     0.101     0.033        5     0.7  G_temp_sup-G_T_transv
 1846   1246   4751  2.711 0.636     0.142     0.034       32     2.7  G_temp_sup-Lateral
  714    536   1744  2.865 0.895     0.101     0.019        5     0.5  G_temp_sup-Plan_polar
  810    555   1388  2.300 0.487     0.095     0.021        4     0.8  G_temp_sup-Plan_tempo
 3479   2265   7752  2.585 0.822     0.147     0.057       71     8.4  G_temporal_inf
 3208   2114   7676  2.707 0.682     0.145     0.052       70     6.5  G_temporal_middle
  494    347    572  1.887 0.320     0.093     0.015        2     0.3  Lat_Fis-ant-Horizont
  296    197    401  2.396 0.390     0.108     0.016        2     0.2  Lat_Fis-ant-Vertical
 1499    996   1963  2.277 0.464     0.102     0.021       10     1.3  Lat_Fis-post
 4108   2556   4825  1.719 0.595     0.147     0.043       68     7.5  Pole_occipital
 1875   1275   5973  3.151 0.922     0.143     0.044       32     3.5  Pole_temporal
 2828   1947   3437  1.980 0.598     0.130     0.029       27     3.4  S_calcarine
 3071   2083   3497  1.967 0.635     0.089     0.018       13     2.3  S_central
 1288    905   1894  2.175 0.466     0.097     0.018        8     0.9  S_cingul-Marginalis
  529    380    828  2.344 0.522     0.113     0.025        3     0.6  S_circular_insula_ant
 1164    842   1579  2.123 0.617     0.081     0.013        4     0.7  S_circular_insula_inf
 1508   1096   1965  2.037 0.467     0.119     0.033       13     2.4  S_circular_insula_sup
 1104    815   2078  2.515 0.647     0.120     0.022       12     0.9  S_collat_transv_ant
  455    305    556  2.179 0.381     0.131     0.028        4     0.6  S_collat_transv_post
 3087   2073   4038  1.959 0.496     0.115     0.029       31     3.8  S_front_inf
 3051   2176   4586  2.067 0.541     0.123     0.028       26     3.6  S_front_middle
 3078   2129   4815  2.303 0.468     0.100     0.019       23     2.5  S_front_sup
  297    207    469  2.398 0.309     0.122     0.020        2     0.3  S_interm_prim-Jensen
 3467   2386   4471  1.974 0.401     0.104     0.020       24     2.8  S_intrapariet&P_trans
 1104    755   1226  2.001 0.395     0.113     0.023        7     1.1  S_oc_middle&Lunatus
 1754   1208   2345  2.120 0.360     0.107     0.020       13     1.2  S_oc_sup&transversal
  555    405    940  2.254 0.489     0.110     0.019        5     0.6  S_occipital_ant
 1267    925   1913  2.457 0.376     0.090     0.014        5     0.7  S_oc-temp_lat
 2380   1700   3245  2.213 0.508     0.112     0.018       18     1.8  S_oc-temp_med&Lingual
  600    451    708  1.637 0.333     0.119     0.027        7     0.7  S_orbital_lateral
  990    734   1399  2.176 0.557     0.113     0.020        7     0.8  S_orbital_med-olfact
 1748   1198   2647  2.176 0.600     0.137     0.038       24     2.7  S_orbital-H_Shaped
 2247   1472   3045  2.240 0.548     0.109     0.021       19     1.8  S_parieto_occipital
 2396   1582   1982  1.461 0.887     0.152     0.057       66     4.8  S_pericallosal
 2671   1750   3126  1.996 0.399     0.096     0.020       18     2.1  S_postcentral
 1925   1305   2629  2.266 0.399     0.101     0.019       14     1.4  S_precentral-inf-part
 1547   1031   2007  2.144 0.500     0.101     0.019        9     1.2  S_precentral-sup-part
  147    115    313  2.710 0.352     0.126     0.020        1     0.2  S_suborbital
 1214    879   1893  2.380 0.463     0.132     0.028       10     1.4  S_subparietal
 1347    924   1663  2.193 0.521     0.122     0.020       14     1.2  S_temporal_inf
 6952   4869  10445  2.265 0.451     0.106     0.019       47     5.4  S_temporal_sup
  305    215    429  2.242 0.503     0.112     0.016        2     0.2  S_temporal_transverse
#-----------------------------------------
#@# Cortical Parc 3 lh Fri Jan 10 23:35:30 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 066 lh ../surf/lh.sphere.reg /apps/x86_64_sci7/freesurfer-6.0.0/average/lh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.DKTatlas.annot

setting seed for random number generator to 1234
using ../mri/aseg.presurf.mgz aseg volume to correct midline
$Id: mris_ca_label.c,v 1.37 2014/02/04 17:46:42 fischl Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading atlas from /apps/x86_64_sci7/freesurfer-6.0.0/average/lh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs...
reading color table from GCSA file....
average std = 1.4   using min determinant for regularization = 0.020
0 singular and 383 ill-conditioned covariance matrices regularized
input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature
labeling surface...
998 labels changed using aseg
relabeling using gibbs priors...
000:   2024 changed, 144820 examined...
001:    470 changed, 9567 examined...
002:    152 changed, 2735 examined...
003:     69 changed, 904 examined...
004:     32 changed, 408 examined...
005:     16 changed, 176 examined...
006:     15 changed, 89 examined...
007:     14 changed, 61 examined...
008:      6 changed, 59 examined...
009:      4 changed, 35 examined...
010:      9 changed, 28 examined...
011:      4 changed, 38 examined...
012:      6 changed, 20 examined...
013:      3 changed, 29 examined...
014:      3 changed, 15 examined...
015:      5 changed, 15 examined...
016:      3 changed, 23 examined...
017:      1 changed, 17 examined...
018:      2 changed, 7 examined...
019:      0 changed, 8 examined...
244 labels changed using aseg
000: 67 total segments, 34 labels (386 vertices) changed
001: 34 total segments, 1 labels (6 vertices) changed
002: 33 total segments, 0 labels (0 vertices) changed
10 filter iterations complete (10 requested, 2 changed)
rationalizing unknown annotations with cortex label
relabeling unknown label...
relabeling corpuscallosum label...
909 vertices marked for relabeling...
909 labels changed in reclassification.
writing output to ../label/lh.aparc.DKTatlas.annot...
classification took 0 minutes and 29 seconds.
#-----------------------------------------
#@# Cortical Parc 3 rh Fri Jan 10 23:35:59 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 066 rh ../surf/rh.sphere.reg /apps/x86_64_sci7/freesurfer-6.0.0/average/rh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/rh.aparc.DKTatlas.annot

setting seed for random number generator to 1234
using ../mri/aseg.presurf.mgz aseg volume to correct midline
$Id: mris_ca_label.c,v 1.37 2014/02/04 17:46:42 fischl Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading atlas from /apps/x86_64_sci7/freesurfer-6.0.0/average/rh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs...
reading color table from GCSA file....
average std = 0.9   using min determinant for regularization = 0.009
0 singular and 325 ill-conditioned covariance matrices regularized
input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature
labeling surface...
840 labels changed using aseg
relabeling using gibbs priors...
000:   2190 changed, 151460 examined...
001:    520 changed, 10024 examined...
002:    145 changed, 2898 examined...
003:     47 changed, 835 examined...
004:     14 changed, 287 examined...
005:     11 changed, 86 examined...
006:      7 changed, 69 examined...
007:      2 changed, 44 examined...
008:      2 changed, 15 examined...
009:      0 changed, 6 examined...
68 labels changed using aseg
000: 73 total segments, 40 labels (269 vertices) changed
001: 36 total segments, 3 labels (4 vertices) changed
002: 33 total segments, 0 labels (0 vertices) changed
10 filter iterations complete (10 requested, 2 changed)
rationalizing unknown annotations with cortex label
relabeling unknown label...
relabeling corpuscallosum label...
1963 vertices marked for relabeling...
1963 labels changed in reclassification.
writing output to ../label/rh.aparc.DKTatlas.annot...
classification took 0 minutes and 29 seconds.
#-----------------------------------------
#@# Parcellation Stats 3 lh Fri Jan 10 23:36:28 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_anatomical_stats -th3 -mgz -cortex ../label/lh.cortex.label -f ../stats/lh.aparc.DKTatlas.stats -b -a ../label/lh.aparc.DKTatlas.annot -c ../label/aparc.annot.DKTatlas.ctab 066 lh white

computing statistics for each annotation in ../label/lh.aparc.DKTatlas.annot.
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/wm.mgz...
reading input surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white...
reading input pial surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.pial...
reading input white surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white...
INFO: using TH3 volume calc
INFO: assuming MGZ format for volumes.
INFO: using ../label/lh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness.
Using TH3 vertex volume calc
Total face volume 239714
Total vertex volume 236277 (mask=0)
reading colortable from annotation file...
colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
Saving annotation colortable ../label/aparc.annot.DKTatlas.ctab

table columns are:
    number of vertices
    total surface area (mm^2)
    total gray matter volume (mm^3)
    average cortical thickness +- standard deviation (mm)
    integrated rectified mean curvature
    integrated rectified Gaussian curvature
    folding index
    intrinsic curvature index
    structure name

atlas_icv (eTIV) = 1534407 mm^3    (det: 1.269614 )
lhCtxGM: 233824.049 233961.000  diff= -137.0  pctdiff=-0.059
rhCtxGM: 241862.704 241136.000  diff=  726.7  pctdiff= 0.300
lhCtxWM: 200251.579 200297.000  diff=  -45.4  pctdiff=-0.023
rhCtxWM: 224084.947 226662.000  diff=-2577.1  pctdiff=-1.150
SubCortGMVol  52283.000
SupraTentVol  979052.281 (978627.000) diff=425.281 pctdiff=0.043
SupraTentVolNotVent  955192.281 (954767.000) diff=425.281 pctdiff=0.045
BrainSegVol  1109780.000 (1106890.000) diff=2890.000 pctdiff=0.260
BrainSegVolNotVent  1081878.000 (1079790.281) diff=2087.719 pctdiff=0.193
BrainSegVolNotVent  1081878.000
CerebellumVol 127056.000
VentChorVol   23860.000
3rd4th5thCSF   4042.000
CSFVol  1153.000, OptChiasmVol    54.000
MaskVol 1582486.000
 2315   1926   2121  1.273 0.716     0.180     0.064       68     6.7  caudalanteriorcingulate
 4668   2919   7339  2.290 0.571     0.123     0.060      134    15.2  caudalmiddlefrontal
 3516   2144   4906  2.027 0.572     0.126     0.030       44     4.6  cuneus
  672    479   1828  2.995 0.798     0.124     0.034        8     0.8  entorhinal
 3776   2542   7161  2.574 0.568     0.127     0.026       51     3.8  fusiform
 9239   6286  16596  2.325 0.521     0.121     0.027      119    10.0  inferiorparietal
 6194   4121  12410  2.478 0.775     0.141     0.051      113    14.2  inferiortemporal
 1586   1010   2416  2.208 0.657     0.125     0.034       22     1.9  isthmuscingulate
 7065   4431  10155  2.029 0.673     0.136     0.037      102    10.9  lateraloccipital
 5492   3565   8816  2.199 0.668     0.133     0.048       92    11.5  lateralorbitofrontal
 6227   3736   8354  2.040 0.631     0.125     0.035       85     8.3  lingual
 2690   1766   4493  2.223 0.680     0.121     0.039       41     4.3  medialorbitofrontal
 7236   4822  14974  2.634 0.645     0.125     0.030       89     9.1  middletemporal
  963    642   1891  2.550 0.705     0.110     0.025       11     0.9  parahippocampal
 2549   1507   4067  2.482 0.714     0.098     0.027       21     2.8  paracentral
 2190   1582   4570  2.453 0.446     0.126     0.031       39     2.5  parsopercularis
 1166    730   1811  2.113 0.641     0.139     0.047       18     2.3  parsorbitalis
 1658   1210   3021  2.215 0.540     0.137     0.030       21     2.1  parstriangularis
 2514   1651   2971  1.921 0.570     0.113     0.028       21     3.0  pericalcarine
 6852   4143   9382  2.063 0.551     0.102     0.027       71     7.8  postcentral
 1814   1269   3078  2.191 0.616     0.144     0.035       33     2.5  posteriorcingulate
 7351   4471  11775  2.449 0.556     0.105     0.031       85    10.0  precentral
 6022   4050   9895  2.262 0.468     0.128     0.026       76     6.3  precuneus
 1976   1544   3163  1.986 0.963     0.136     0.038       33     3.3  rostralanteriorcingulate
 5891   3950  10381  2.199 0.573     0.140     0.045      104    11.2  rostralmiddlefrontal
13243  10255  26988  2.360 0.656     0.141     0.039      221    22.0  superiorfrontal
 7838   5139  12520  2.153 0.515     0.114     0.027       98     8.3  superiorparietal
 6528   4658  14878  2.653 0.707     0.118     0.029       73     8.1  superiortemporal
 4106   2832   7451  2.384 0.510     0.132     0.034       62     5.8  supramarginal
  641    394   1086  2.533 0.446     0.113     0.028        8     0.6  transversetemporal
 2857   1976   5781  2.649 0.843     0.124     0.046       43     6.0  insula
#-----------------------------------------
#@# Parcellation Stats 3 rh Fri Jan 10 23:37:51 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_anatomical_stats -th3 -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.DKTatlas.stats -b -a ../label/rh.aparc.DKTatlas.annot -c ../label/aparc.annot.DKTatlas.ctab 066 rh white

computing statistics for each annotation in ../label/rh.aparc.DKTatlas.annot.
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/wm.mgz...
reading input surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white...
reading input pial surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.pial...
reading input white surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white...
INFO: using TH3 volume calc
INFO: assuming MGZ format for volumes.
INFO: using ../label/rh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness.
Using TH3 vertex volume calc
Total face volume 245665
Total vertex volume 242468 (mask=0)
reading colortable from annotation file...
colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
Saving annotation colortable ../label/aparc.annot.DKTatlas.ctab

table columns are:
    number of vertices
    total surface area (mm^2)
    total gray matter volume (mm^3)
    average cortical thickness +- standard deviation (mm)
    integrated rectified mean curvature
    integrated rectified Gaussian curvature
    folding index
    intrinsic curvature index
    structure name

atlas_icv (eTIV) = 1534407 mm^3    (det: 1.269614 )
lhCtxGM: 233824.049 233961.000  diff= -137.0  pctdiff=-0.059
rhCtxGM: 241862.704 241136.000  diff=  726.7  pctdiff= 0.300
lhCtxWM: 200251.579 200297.000  diff=  -45.4  pctdiff=-0.023
rhCtxWM: 224084.947 226662.000  diff=-2577.1  pctdiff=-1.150
SubCortGMVol  52283.000
SupraTentVol  979052.281 (978627.000) diff=425.281 pctdiff=0.043
SupraTentVolNotVent  955192.281 (954767.000) diff=425.281 pctdiff=0.045
BrainSegVol  1109780.000 (1106890.000) diff=2890.000 pctdiff=0.260
BrainSegVolNotVent  1081878.000 (1079790.281) diff=2087.719 pctdiff=0.193
BrainSegVolNotVent  1081878.000
CerebellumVol 127056.000
VentChorVol   23860.000
3rd4th5thCSF   4042.000
CSFVol  1153.000, OptChiasmVol    54.000
MaskVol 1582486.000
 2010   1435   2918  1.648 0.959     0.156     0.069       74     5.9  caudalanteriorcingulate
 4511   2835   7072  2.242 0.575     0.122     0.042       66     8.9  caudalmiddlefrontal
 3503   2156   4595  1.913 0.522     0.133     0.032       49     4.4  cuneus
  498    343   1688  3.436 0.607     0.127     0.026        5     0.5  entorhinal
 4521   3024   8314  2.551 0.623     0.122     0.031       60     5.7  fusiform
 9778   6563  16350  2.251 0.476     0.122     0.029      132    11.6  inferiorparietal
 6170   4133  12774  2.610 0.786     0.135     0.045       97    11.8  inferiortemporal
 1491    951   2726  2.420 0.716     0.147     0.041       28     2.5  isthmuscingulate
 8337   5260  12060  2.053 0.628     0.135     0.038      116    13.1  lateraloccipital
 5601   3680   8984  2.209 0.748     0.148     0.056      103    13.0  lateralorbitofrontal
 6135   3868   7749  1.877 0.608     0.135     0.035       81     9.5  lingual
 2528   1741   4897  2.342 0.770     0.130     0.043       44     4.1  medialorbitofrontal
 6633   4466  13472  2.556 0.658     0.126     0.034       96     9.1  middletemporal
 1346    775   2093  2.389 0.623     0.094     0.025       10     1.4  parahippocampal
 2781   1574   4321  2.481 0.629     0.104     0.035       42     4.1  paracentral
 2932   1907   4834  2.286 0.536     0.127     0.035       42     4.3  parsopercularis
 1092    764   2260  2.352 0.631     0.125     0.026       10     1.2  parsorbitalis
 2705   1841   4320  2.107 0.490     0.130     0.037       35     3.6  parstriangularis
 2791   1870   2783  1.636 0.488     0.132     0.034       30     4.0  pericalcarine
 6958   4252   8945  1.923 0.587     0.101     0.030       74     9.2  postcentral
 1702   1240   3128  2.294 0.706     0.133     0.029       22     1.9  posteriorcingulate
 8232   4745  12303  2.447 0.606     0.107     0.033       93    11.4  precentral
 5912   3977  10429  2.397 0.539     0.122     0.026       67     6.3  precuneus
 1314    859   2188  2.383 0.972     0.126     0.041       24     2.3  rostralanteriorcingulate
 8105   5400  13483  2.093 0.600     0.135     0.046      137    15.7  rostralmiddlefrontal
13841   9345  25896  2.395 0.613     0.126     0.035      192    20.1  superiorfrontal
 7482   4953  12198  2.143 0.555     0.120     0.029       92     9.1  superiorparietal
 6555   4591  14086  2.557 0.767     0.115     0.026       69     6.8  superiortemporal
 4911   3246   8692  2.393 0.490     0.118     0.029       62     5.6  supramarginal
  664    319   1030  2.618 0.546     0.093     0.029        6     0.8  transversetemporal
 3028   2127   5880  2.613 0.777     0.114     0.029       27     3.8  insula
#-----------------------------------------
#@# WM/GM Contrast lh Fri Jan 10 23:39:18 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 pctsurfcon --s 066 --lh-only

Log file is /study2/emowrap/data/freesurfer/subjects/066/scripts/pctsurfcon.log
Fri Jan 10 23:39:18 CST 2020
setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/scripts
/apps/x86_64_sci7/freesurfer-6.0.0/bin/pctsurfcon
$Id: pctsurfcon,v 1.15 2016/02/12 21:43:15 zkaufman Exp $
Linux c139.keck.waisman.wisc.edu 3.10.0-1062.9.1.el7.x86_64 #1 SMP Thu Dec 5 14:44:59 CST 2019 x86_64 x86_64 x86_64 GNU/Linux
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
mri_vol2surf --mov /study2/emowrap/data/freesurfer/subjects/066/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --projdist -1 --o /study2/emowrap/data/freesurfer/subjects/066/surf/tmp.pctsurfcon.27617/lh.wm.mgh --regheader 066 --cortex
srcvol = /study2/emowrap/data/freesurfer/subjects/066/mri/rawavg.mgz
srcreg unspecified
srcregold = 0
srcwarp unspecified
surf = white
hemi = lh
ProjDist = -1
reshape = 0
interp = trilinear
float2int = round
GetProjMax = 0
INFO: float2int code = 0
Done loading volume
Computing registration from header.
  Using /study2/emowrap/data/freesurfer/subjects/066/mri/orig.mgz as target reference.
-------- original matrix -----------
-1.00000   0.00000   0.00000   0.00000;
 0.00000   0.00000   1.00000  -0.00001;
 0.00000  -1.00000   0.00000   0.00000;
 0.00000   0.00000   0.00000   1.00000;
-------- original matrix -----------
Loading label /study2/emowrap/data/freesurfer/subjects/066/label/lh.cortex.label
Reading surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Done reading source surface
Mapping Source Volume onto Source Subject Surface
 1 -1 -1 -1
using old
Done mapping volume to surface
Number of source voxels hit = 76286
Masking with /study2/emowrap/data/freesurfer/subjects/066/label/lh.cortex.label
Writing to /study2/emowrap/data/freesurfer/subjects/066/surf/tmp.pctsurfcon.27617/lh.wm.mgh
Dim: 144820 1 1
mri_vol2surf --mov /study2/emowrap/data/freesurfer/subjects/066/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --o /study2/emowrap/data/freesurfer/subjects/066/surf/tmp.pctsurfcon.27617/lh.gm.mgh --projfrac 0.3 --regheader 066 --cortex
srcvol = /study2/emowrap/data/freesurfer/subjects/066/mri/rawavg.mgz
srcreg unspecified
srcregold = 0
srcwarp unspecified
surf = white
hemi = lh
ProjFrac = 0.3
thickness = thickness
reshape = 0
interp = trilinear
float2int = round
GetProjMax = 0
INFO: float2int code = 0
Done loading volume
Computing registration from header.
  Using /study2/emowrap/data/freesurfer/subjects/066/mri/orig.mgz as target reference.
-------- original matrix -----------
-1.00000   0.00000   0.00000   0.00000;
 0.00000   0.00000   1.00000  -0.00001;
 0.00000  -1.00000   0.00000   0.00000;
 0.00000   0.00000   0.00000   1.00000;
-------- original matrix -----------
Loading label /study2/emowrap/data/freesurfer/subjects/066/label/lh.cortex.label
Reading surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Done reading source surface
Reading thickness /study2/emowrap/data/freesurfer/subjects/066/surf/lh.thickness
Done
Mapping Source Volume onto Source Subject Surface
 1 0.3 0.3 0.3
using old
Done mapping volume to surface
Number of source voxels hit = 94795
Masking with /study2/emowrap/data/freesurfer/subjects/066/label/lh.cortex.label
Writing to /study2/emowrap/data/freesurfer/subjects/066/surf/tmp.pctsurfcon.27617/lh.gm.mgh
Dim: 144820 1 1
mri_concat /study2/emowrap/data/freesurfer/subjects/066/surf/tmp.pctsurfcon.27617/lh.wm.mgh /study2/emowrap/data/freesurfer/subjects/066/surf/tmp.pctsurfcon.27617/lh.gm.mgh --paired-diff-norm --mul 100 --o /study2/emowrap/data/freesurfer/subjects/066/surf/lh.w-g.pct.mgh
ninputs = 2
Checking inputs
nframestot = 2
Allocing output
Done allocing
Combining pairs
nframes = 1
Multiplying by 100.000000
Writing to /study2/emowrap/data/freesurfer/subjects/066/surf/lh.w-g.pct.mgh
mri_segstats --in /study2/emowrap/data/freesurfer/subjects/066/surf/lh.w-g.pct.mgh --annot 066 lh aparc --sum /study2/emowrap/data/freesurfer/subjects/066/stats/lh.w-g.pct.stats --snr

$Id: mri_segstats.c,v 1.121 2016/05/31 17:27:11 greve Exp $
cwd
cmdline mri_segstats --in /study2/emowrap/data/freesurfer/subjects/066/surf/lh.w-g.pct.mgh --annot 066 lh aparc --sum /study2/emowrap/data/freesurfer/subjects/066/stats/lh.w-g.pct.stats --snr
sysname  Linux
hostname c139.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
UseRobust  0
Constructing seg from annotation

Reading annotation /study2/emowrap/data/freesurfer/subjects/066/label/lh.aparc.annot
reading colortable from annotation file...
colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
Seg base 1000
Loading /study2/emowrap/data/freesurfer/subjects/066/surf/lh.w-g.pct.mgh
Vertex Area is 0.670315 mm^3
Generating list of segmentation ids
Found  36 segmentations
Computing statistics for each segmentation

Reporting on  35 segmentations
Using PrintSegStat
mri_segstats done
Cleaning up
#-----------------------------------------
#@# WM/GM Contrast rh Fri Jan 10 23:39:30 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 pctsurfcon --s 066 --rh-only

Log file is /study2/emowrap/data/freesurfer/subjects/066/scripts/pctsurfcon.log
Fri Jan 10 23:39:30 CST 2020
setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/scripts
/apps/x86_64_sci7/freesurfer-6.0.0/bin/pctsurfcon
$Id: pctsurfcon,v 1.15 2016/02/12 21:43:15 zkaufman Exp $
Linux c139.keck.waisman.wisc.edu 3.10.0-1062.9.1.el7.x86_64 #1 SMP Thu Dec 5 14:44:59 CST 2019 x86_64 x86_64 x86_64 GNU/Linux
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
mri_vol2surf --mov /study2/emowrap/data/freesurfer/subjects/066/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --projdist -1 --o /study2/emowrap/data/freesurfer/subjects/066/surf/tmp.pctsurfcon.27880/rh.wm.mgh --regheader 066 --cortex
srcvol = /study2/emowrap/data/freesurfer/subjects/066/mri/rawavg.mgz
srcreg unspecified
srcregold = 0
srcwarp unspecified
surf = white
hemi = rh
ProjDist = -1
reshape = 0
interp = trilinear
float2int = round
GetProjMax = 0
INFO: float2int code = 0
Done loading volume
Computing registration from header.
  Using /study2/emowrap/data/freesurfer/subjects/066/mri/orig.mgz as target reference.
-------- original matrix -----------
-1.00000   0.00000   0.00000   0.00000;
 0.00000   0.00000   1.00000  -0.00001;
 0.00000  -1.00000   0.00000   0.00000;
 0.00000   0.00000   0.00000   1.00000;
-------- original matrix -----------
Loading label /study2/emowrap/data/freesurfer/subjects/066/label/rh.cortex.label
Reading surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Done reading source surface
Mapping Source Volume onto Source Subject Surface
 1 -1 -1 -1
using old
Done mapping volume to surface
Number of source voxels hit = 80225
Masking with /study2/emowrap/data/freesurfer/subjects/066/label/rh.cortex.label
Writing to /study2/emowrap/data/freesurfer/subjects/066/surf/tmp.pctsurfcon.27880/rh.wm.mgh
Dim: 151460 1 1
mri_vol2surf --mov /study2/emowrap/data/freesurfer/subjects/066/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --o /study2/emowrap/data/freesurfer/subjects/066/surf/tmp.pctsurfcon.27880/rh.gm.mgh --projfrac 0.3 --regheader 066 --cortex
srcvol = /study2/emowrap/data/freesurfer/subjects/066/mri/rawavg.mgz
srcreg unspecified
srcregold = 0
srcwarp unspecified
surf = white
hemi = rh
ProjFrac = 0.3
thickness = thickness
reshape = 0
interp = trilinear
float2int = round
GetProjMax = 0
INFO: float2int code = 0
Done loading volume
Computing registration from header.
  Using /study2/emowrap/data/freesurfer/subjects/066/mri/orig.mgz as target reference.
-------- original matrix -----------
-1.00000   0.00000   0.00000   0.00000;
 0.00000   0.00000   1.00000  -0.00001;
 0.00000  -1.00000   0.00000   0.00000;
 0.00000   0.00000   0.00000   1.00000;
-------- original matrix -----------
Loading label /study2/emowrap/data/freesurfer/subjects/066/label/rh.cortex.label
Reading surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Done reading source surface
Reading thickness /study2/emowrap/data/freesurfer/subjects/066/surf/rh.thickness
Done
Mapping Source Volume onto Source Subject Surface
 1 0.3 0.3 0.3
using old
Done mapping volume to surface
Number of source voxels hit = 98989
Masking with /study2/emowrap/data/freesurfer/subjects/066/label/rh.cortex.label
Writing to /study2/emowrap/data/freesurfer/subjects/066/surf/tmp.pctsurfcon.27880/rh.gm.mgh
Dim: 151460 1 1
mri_concat /study2/emowrap/data/freesurfer/subjects/066/surf/tmp.pctsurfcon.27880/rh.wm.mgh /study2/emowrap/data/freesurfer/subjects/066/surf/tmp.pctsurfcon.27880/rh.gm.mgh --paired-diff-norm --mul 100 --o /study2/emowrap/data/freesurfer/subjects/066/surf/rh.w-g.pct.mgh
ninputs = 2
Checking inputs
nframestot = 2
Allocing output
Done allocing
Combining pairs
nframes = 1
Multiplying by 100.000000
Writing to /study2/emowrap/data/freesurfer/subjects/066/surf/rh.w-g.pct.mgh
mri_segstats --in /study2/emowrap/data/freesurfer/subjects/066/surf/rh.w-g.pct.mgh --annot 066 rh aparc --sum /study2/emowrap/data/freesurfer/subjects/066/stats/rh.w-g.pct.stats --snr

$Id: mri_segstats.c,v 1.121 2016/05/31 17:27:11 greve Exp $
cwd
cmdline mri_segstats --in /study2/emowrap/data/freesurfer/subjects/066/surf/rh.w-g.pct.mgh --annot 066 rh aparc --sum /study2/emowrap/data/freesurfer/subjects/066/stats/rh.w-g.pct.stats --snr
sysname  Linux
hostname c139.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
UseRobust  0
Constructing seg from annotation

Reading annotation /study2/emowrap/data/freesurfer/subjects/066/label/rh.aparc.annot
reading colortable from annotation file...
colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
Seg base 2000
Loading /study2/emowrap/data/freesurfer/subjects/066/surf/rh.w-g.pct.mgh
Vertex Area is 0.654512 mm^3
Generating list of segmentation ids
Found  36 segmentations
Computing statistics for each segmentation

Reporting on  35 segmentations
Using PrintSegStat
mri_segstats done
Cleaning up
#-----------------------------------------
#@# Relabel Hypointensities Fri Jan 10 23:39:42 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/mri

 mri_relabel_hypointensities aseg.presurf.mgz ../surf aseg.presurf.hypos.mgz

reading input surface ../surf/lh.white...
relabeling lh hypointensities...
3664 voxels changed to hypointensity...
reading input surface ../surf/rh.white...
relabeling rh hypointensities...
3410 voxels changed to hypointensity...
7356 hypointense voxels neighboring cortex changed
#-----------------------------------------
#@# AParc-to-ASeg aparc Fri Jan 10 23:40:26 CST 2020
/study2/emowrap/data/freesurfer/subjects/066

 mri_aparc2aseg --s 066 --volmask --aseg aseg.presurf.hypos --relabel mri/norm.mgz mri/transforms/talairach.m3z /apps/x86_64_sci7/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca mri/aseg.auto_noCCseg.label_intensities.txt

relabeling unlikely voxels interior to white matter surface:
	norm: mri/norm.mgz
	 XFORM: mri/transforms/talairach.m3z
	GCA: /apps/x86_64_sci7/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca
	label intensities: mri/aseg.auto_noCCseg.label_intensities.txt
SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
subject 066
outvol /study2/emowrap/data/freesurfer/subjects/066/mri/aparc+aseg.mgz
useribbon 0
baseoffset 0
RipUnknown 0

Reading lh white surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white

Reading lh pial surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.pial

Loading lh annotations from /study2/emowrap/data/freesurfer/subjects/066/label/lh.aparc.annot
reading colortable from annotation file...
colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)

Reading rh white surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white

Reading rh pial surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.pial

Loading rh annotations from /study2/emowrap/data/freesurfer/subjects/066/label/rh.aparc.annot
reading colortable from annotation file...
colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
Have color table for lh white annotation
Have color table for rh white annotation
Loading ribbon segmentation from /study2/emowrap/data/freesurfer/subjects/066/mri/ribbon.mgz

Building hash of lh white

Building hash of lh pial

Building hash of rh white

Building hash of rh pial

Loading aseg from /study2/emowrap/data/freesurfer/subjects/066/mri/aseg.presurf.hypos.mgz
ASeg Vox2RAS: -----------
-1.00000   0.00000   0.00000   128.00000;
 0.00000   0.00000   1.00000  -128.00000;
 0.00000  -1.00000   0.00000   128.00000;
 0.00000   0.00000   0.00000   1.00000;
-------------------------

Labeling Slice
relabeling unlikely voxels in interior of white matter
setting orig areas to linear transform determinant scaled 6.73
reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt
rescaling Left_Cerebral_White_Matter from 107 --> 103
rescaling Left_Cerebral_Cortex from 61 --> 68
rescaling Left_Lateral_Ventricle from 13 --> 17
rescaling Left_Inf_Lat_Vent from 34 --> 33
rescaling Left_Cerebellum_White_Matter from 86 --> 88
rescaling Left_Cerebellum_Cortex from 60 --> 63
rescaling Left_Thalamus from 94 --> 100
rescaling Left_Thalamus_Proper from 84 --> 84
rescaling Left_Caudate from 75 --> 61
rescaling Left_Putamen from 80 --> 84
rescaling Left_Pallidum from 98 --> 99
rescaling Third_Ventricle from 25 --> 25
rescaling Fourth_Ventricle from 22 --> 16
rescaling Brain_Stem from 81 --> 87
rescaling Left_Hippocampus from 57 --> 58
rescaling Left_Amygdala from 56 --> 60
rescaling CSF from 32 --> 35
rescaling Left_Accumbens_area from 62 --> 55
rescaling Left_VentralDC from 87 --> 89
rescaling Right_Cerebral_White_Matter from 105 --> 101
rescaling Right_Cerebral_Cortex from 58 --> 68
rescaling Right_Lateral_Ventricle from 13 --> 15
rescaling Right_Inf_Lat_Vent from 25 --> 24
rescaling Right_Cerebellum_White_Matter from 87 --> 85
rescaling Right_Cerebellum_Cortex from 59 --> 66
rescaling Right_Thalamus_Proper from 85 --> 81
rescaling Right_Caudate from 62 --> 66
rescaling Right_Putamen from 80 --> 83
rescaling Right_Pallidum from 97 --> 99
rescaling Right_Hippocampus from 53 --> 58
rescaling Right_Amygdala from 55 --> 58
rescaling Right_Accumbens_area from 65 --> 65
rescaling Right_VentralDC from 86 --> 94
rescaling Fifth_Ventricle from 40 --> 31
rescaling WM_hypointensities from 78 --> 76
rescaling non_WM_hypointensities from 40 --> 54
  0   1   2   3   4   5   6   7   8   9  10  11  12  13  14  15  16  17  18  19
 20  21  22  23  24  25  26  27  28  29  30  31  32  33  34  35  36  37  38  39
 40  41  42  43  44  45  46  47  48  49  50  51  52  53  54  55  56  57  58  59
 60  61  62  63  64  65  66  67  68  69  70  71  72  73  74  75  76  77  78  79
 80  81  82  83  84  85  86  87  88  89  90  91  92  93  94  95  96  97  98  99
100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119
120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139
140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159
160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179
180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199
200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219
220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239
240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 nctx = 474286
Used brute-force search on 0 voxels
relabeling unlikely voxels in interior of white matter
average std[0] = 7.3
pass 1: 1167 changed.
pass 2: 121 changed.
pass 3: 7 changed.
pass 4: 2 changed.
pass 5: 0 changed.
nchanged = 0
Writing output aseg to /study2/emowrap/data/freesurfer/subjects/066/mri/aparc+aseg.mgz
#-----------------------------------------
#@# AParc-to-ASeg a2009s Fri Jan 10 23:48:08 CST 2020
/study2/emowrap/data/freesurfer/subjects/066

 mri_aparc2aseg --s 066 --volmask --aseg aseg.presurf.hypos --relabel mri/norm.mgz mri/transforms/talairach.m3z /apps/x86_64_sci7/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca mri/aseg.auto_noCCseg.label_intensities.txt --a2009s

relabeling unlikely voxels interior to white matter surface:
	norm: mri/norm.mgz
	 XFORM: mri/transforms/talairach.m3z
	GCA: /apps/x86_64_sci7/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca
	label intensities: mri/aseg.auto_noCCseg.label_intensities.txt
SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
subject 066
outvol /study2/emowrap/data/freesurfer/subjects/066/mri/aparc.a2009s+aseg.mgz
useribbon 0
baseoffset 10100
RipUnknown 0

Reading lh white surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white

Reading lh pial surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.pial

Loading lh annotations from /study2/emowrap/data/freesurfer/subjects/066/label/lh.aparc.a2009s.annot
reading colortable from annotation file...
colortable with 76 entries read (originally Simple_surface_labels2008.txt)

Reading rh white surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white

Reading rh pial surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.pial

Loading rh annotations from /study2/emowrap/data/freesurfer/subjects/066/label/rh.aparc.a2009s.annot
reading colortable from annotation file...
colortable with 76 entries read (originally Simple_surface_labels2008.txt)
Have color table for lh white annotation
Have color table for rh white annotation
Loading ribbon segmentation from /study2/emowrap/data/freesurfer/subjects/066/mri/ribbon.mgz

Building hash of lh white

Building hash of lh pial

Building hash of rh white

Building hash of rh pial

Loading aseg from /study2/emowrap/data/freesurfer/subjects/066/mri/aseg.presurf.hypos.mgz
ASeg Vox2RAS: -----------
-1.00000   0.00000   0.00000   128.00000;
 0.00000   0.00000   1.00000  -128.00000;
 0.00000  -1.00000   0.00000   128.00000;
 0.00000   0.00000   0.00000   1.00000;
-------------------------

Labeling Slice
relabeling unlikely voxels in interior of white matter
setting orig areas to linear transform determinant scaled 6.73
reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt
rescaling Left_Cerebral_White_Matter from 107 --> 103
rescaling Left_Cerebral_Cortex from 61 --> 68
rescaling Left_Lateral_Ventricle from 13 --> 17
rescaling Left_Inf_Lat_Vent from 34 --> 33
rescaling Left_Cerebellum_White_Matter from 86 --> 88
rescaling Left_Cerebellum_Cortex from 60 --> 63
rescaling Left_Thalamus from 94 --> 100
rescaling Left_Thalamus_Proper from 84 --> 84
rescaling Left_Caudate from 75 --> 61
rescaling Left_Putamen from 80 --> 84
rescaling Left_Pallidum from 98 --> 99
rescaling Third_Ventricle from 25 --> 25
rescaling Fourth_Ventricle from 22 --> 16
rescaling Brain_Stem from 81 --> 87
rescaling Left_Hippocampus from 57 --> 58
rescaling Left_Amygdala from 56 --> 60
rescaling CSF from 32 --> 35
rescaling Left_Accumbens_area from 62 --> 55
rescaling Left_VentralDC from 87 --> 89
rescaling Right_Cerebral_White_Matter from 105 --> 101
rescaling Right_Cerebral_Cortex from 58 --> 68
rescaling Right_Lateral_Ventricle from 13 --> 15
rescaling Right_Inf_Lat_Vent from 25 --> 24
rescaling Right_Cerebellum_White_Matter from 87 --> 85
rescaling Right_Cerebellum_Cortex from 59 --> 66
rescaling Right_Thalamus_Proper from 85 --> 81
rescaling Right_Caudate from 62 --> 66
rescaling Right_Putamen from 80 --> 83
rescaling Right_Pallidum from 97 --> 99
rescaling Right_Hippocampus from 53 --> 58
rescaling Right_Amygdala from 55 --> 58
rescaling Right_Accumbens_area from 65 --> 65
rescaling Right_VentralDC from 86 --> 94
rescaling Fifth_Ventricle from 40 --> 31
rescaling WM_hypointensities from 78 --> 76
rescaling non_WM_hypointensities from 40 --> 54
  0   1   2   3   4   5   6   7   8   9  10  11  12  13  14  15  16  17  18  19
 20  21  22  23  24  25  26  27  28  29  30  31  32  33  34  35  36  37  38  39
 40  41  42  43  44  45  46  47  48  49  50  51  52  53  54  55  56  57  58  59
 60  61  62  63  64  65  66  67  68  69  70  71  72  73  74  75  76  77  78  79
 80  81  82  83  84  85  86  87  88  89  90  91  92  93  94  95  96  97  98  99
100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119
120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139
140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159
160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179
180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199
200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219
220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239
240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 nctx = 474316
Used brute-force search on 0 voxels
relabeling unlikely voxels in interior of white matter
average std[0] = 7.3
pass 1: 1167 changed.
pass 2: 121 changed.
pass 3: 7 changed.
pass 4: 2 changed.
pass 5: 0 changed.
nchanged = 0
Writing output aseg to /study2/emowrap/data/freesurfer/subjects/066/mri/aparc.a2009s+aseg.mgz
#-----------------------------------------
#@# AParc-to-ASeg DKTatlas Fri Jan 10 23:55:36 CST 2020
/study2/emowrap/data/freesurfer/subjects/066

 mri_aparc2aseg --s 066 --volmask --aseg aseg.presurf.hypos --relabel mri/norm.mgz mri/transforms/talairach.m3z /apps/x86_64_sci7/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca mri/aseg.auto_noCCseg.label_intensities.txt --annot aparc.DKTatlas --o mri/aparc.DKTatlas+aseg.mgz

relabeling unlikely voxels interior to white matter surface:
	norm: mri/norm.mgz
	 XFORM: mri/transforms/talairach.m3z
	GCA: /apps/x86_64_sci7/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca
	label intensities: mri/aseg.auto_noCCseg.label_intensities.txt
SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
subject 066
outvol mri/aparc.DKTatlas+aseg.mgz
useribbon 0
baseoffset 0
RipUnknown 0

Reading lh white surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white

Reading lh pial surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.pial

Loading lh annotations from /study2/emowrap/data/freesurfer/subjects/066/label/lh.aparc.DKTatlas.annot
reading colortable from annotation file...
colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)

Reading rh white surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white

Reading rh pial surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.pial

Loading rh annotations from /study2/emowrap/data/freesurfer/subjects/066/label/rh.aparc.DKTatlas.annot
reading colortable from annotation file...
colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
Have color table for lh white annotation
Have color table for rh white annotation
Loading ribbon segmentation from /study2/emowrap/data/freesurfer/subjects/066/mri/ribbon.mgz

Building hash of lh white

Building hash of lh pial

Building hash of rh white

Building hash of rh pial

Loading aseg from /study2/emowrap/data/freesurfer/subjects/066/mri/aseg.presurf.hypos.mgz
ASeg Vox2RAS: -----------
-1.00000   0.00000   0.00000   128.00000;
 0.00000   0.00000   1.00000  -128.00000;
 0.00000  -1.00000   0.00000   128.00000;
 0.00000   0.00000   0.00000   1.00000;
-------------------------

Labeling Slice
relabeling unlikely voxels in interior of white matter
setting orig areas to linear transform determinant scaled 6.73
reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt
rescaling Left_Cerebral_White_Matter from 107 --> 103
rescaling Left_Cerebral_Cortex from 61 --> 68
rescaling Left_Lateral_Ventricle from 13 --> 17
rescaling Left_Inf_Lat_Vent from 34 --> 33
rescaling Left_Cerebellum_White_Matter from 86 --> 88
rescaling Left_Cerebellum_Cortex from 60 --> 63
rescaling Left_Thalamus from 94 --> 100
rescaling Left_Thalamus_Proper from 84 --> 84
rescaling Left_Caudate from 75 --> 61
rescaling Left_Putamen from 80 --> 84
rescaling Left_Pallidum from 98 --> 99
rescaling Third_Ventricle from 25 --> 25
rescaling Fourth_Ventricle from 22 --> 16
rescaling Brain_Stem from 81 --> 87
rescaling Left_Hippocampus from 57 --> 58
rescaling Left_Amygdala from 56 --> 60
rescaling CSF from 32 --> 35
rescaling Left_Accumbens_area from 62 --> 55
rescaling Left_VentralDC from 87 --> 89
rescaling Right_Cerebral_White_Matter from 105 --> 101
rescaling Right_Cerebral_Cortex from 58 --> 68
rescaling Right_Lateral_Ventricle from 13 --> 15
rescaling Right_Inf_Lat_Vent from 25 --> 24
rescaling Right_Cerebellum_White_Matter from 87 --> 85
rescaling Right_Cerebellum_Cortex from 59 --> 66
rescaling Right_Thalamus_Proper from 85 --> 81
rescaling Right_Caudate from 62 --> 66
rescaling Right_Putamen from 80 --> 83
rescaling Right_Pallidum from 97 --> 99
rescaling Right_Hippocampus from 53 --> 58
rescaling Right_Amygdala from 55 --> 58
rescaling Right_Accumbens_area from 65 --> 65
rescaling Right_VentralDC from 86 --> 94
rescaling Fifth_Ventricle from 40 --> 31
rescaling WM_hypointensities from 78 --> 76
rescaling non_WM_hypointensities from 40 --> 54
  0   1   2   3   4   5   6   7   8   9  10  11  12  13  14  15  16  17  18  19
 20  21  22  23  24  25  26  27  28  29  30  31  32  33  34  35  36  37  38  39
 40  41  42  43  44  45  46  47  48  49  50  51  52  53  54  55  56  57  58  59
 60  61  62  63  64  65  66  67  68  69  70  71  72  73  74  75  76  77  78  79
 80  81  82  83  84  85  86  87  88  89  90  91  92  93  94  95  96  97  98  99
100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119
120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139
140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159
160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179
180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199
200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219
220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239
240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 nctx = 474316
Used brute-force search on 0 voxels
relabeling unlikely voxels in interior of white matter
average std[0] = 7.3
pass 1: 1167 changed.
pass 2: 121 changed.
pass 3: 7 changed.
pass 4: 2 changed.
pass 5: 0 changed.
nchanged = 0
Writing output aseg to mri/aparc.DKTatlas+aseg.mgz
#-----------------------------------------
#@# APas-to-ASeg Sat Jan 11 00:03:15 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/mri

 apas2aseg --i aparc+aseg.mgz --o aseg.mgz

Sat Jan 11 00:03:15 CST 2020

setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
cd /study2/emowrap/data/freesurfer/subjects/066/mri
/apps/x86_64_sci7/freesurfer-6.0.0/bin/apas2aseg --i aparc+aseg.mgz --o aseg.mgz

freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c
$Id: apas2aseg,v 1.2 2016/02/12 21:43:14 zkaufman Exp $
Linux c139.keck.waisman.wisc.edu 3.10.0-1062.9.1.el7.x86_64 #1 SMP Thu Dec 5 14:44:59 CST 2019 x86_64 x86_64 x86_64 GNU/Linux
mri_binarize --i aparc+aseg.mgz --o aseg.mgz --replace 1000 3 --replace 2000 42 --replace 1001 3 --replace 2001 42 --replace 1002 3 --replace 2002 42 --replace 1003 3 --replace 2003 42 --replace 1004 3 --replace 2004 42 --replace 1005 3 --replace 2005 42 --replace 1006 3 --replace 2006 42 --replace 1007 3 --replace 2007 42 --replace 1008 3 --replace 2008 42 --replace 1009 3 --replace 2009 42 --replace 1010 3 --replace 2010 42 --replace 1011 3 --replace 2011 42 --replace 1012 3 --replace 2012 42 --replace 1013 3 --replace 2013 42 --replace 1014 3 --replace 2014 42 --replace 1015 3 --replace 2015 42 --replace 1016 3 --replace 2016 42 --replace 1017 3 --replace 2017 42 --replace 1018 3 --replace 2018 42 --replace 1019 3 --replace 2019 42 --replace 1020 3 --replace 2020 42 --replace 1021 3 --replace 2021 42 --replace 1022 3 --replace 2022 42 --replace 1023 3 --replace 2023 42 --replace 1024 3 --replace 2024 42 --replace 1025 3 --replace 2025 42 --replace 1026 3 --replace 2026 42 --replace 1027 3 --replace 2027 42 --replace 1028 3 --replace 2028 42 --replace 1029 3 --replace 2029 42 --replace 1030 3 --replace 2030 42 --replace 1031 3 --replace 2031 42 --replace 1032 3 --replace 2032 42 --replace 1033 3 --replace 2033 42 --replace 1034 3 --replace 2034 42 --replace 1035 3 --replace 2035 42

$Id: mri_binarize.c,v 1.43 2016/06/09 20:46:21 greve Exp $
cwd /study2/emowrap/data/freesurfer/subjects/066/mri
cmdline mri_binarize.bin --i aparc+aseg.mgz --o aseg.mgz --replace 1000 3 --replace 2000 42 --replace 1001 3 --replace 2001 42 --replace 1002 3 --replace 2002 42 --replace 1003 3 --replace 2003 42 --replace 1004 3 --replace 2004 42 --replace 1005 3 --replace 2005 42 --replace 1006 3 --replace 2006 42 --replace 1007 3 --replace 2007 42 --replace 1008 3 --replace 2008 42 --replace 1009 3 --replace 2009 42 --replace 1010 3 --replace 2010 42 --replace 1011 3 --replace 2011 42 --replace 1012 3 --replace 2012 42 --replace 1013 3 --replace 2013 42 --replace 1014 3 --replace 2014 42 --replace 1015 3 --replace 2015 42 --replace 1016 3 --replace 2016 42 --replace 1017 3 --replace 2017 42 --replace 1018 3 --replace 2018 42 --replace 1019 3 --replace 2019 42 --replace 1020 3 --replace 2020 42 --replace 1021 3 --replace 2021 42 --replace 1022 3 --replace 2022 42 --replace 1023 3 --replace 2023 42 --replace 1024 3 --replace 2024 42 --replace 1025 3 --replace 2025 42 --replace 1026 3 --replace 2026 42 --replace 1027 3 --replace 2027 42 --replace 1028 3 --replace 2028 42 --replace 1029 3 --replace 2029 42 --replace 1030 3 --replace 2030 42 --replace 1031 3 --replace 2031 42 --replace 1032 3 --replace 2032 42 --replace 1033 3 --replace 2033 42 --replace 1034 3 --replace 2034 42 --replace 1035 3 --replace 2035 42
sysname  Linux
hostname c139.keck.waisman.wisc.edu
machine  x86_64
user     quinlan

input      aparc+aseg.mgz
frame      0
nErode3d   0
nErode2d   0
output     aseg.mgz
Binarizing based on threshold
min        -infinity
max        +infinity
binval        1
binvalnot     0
fstart = 0, fend = 0, nframes = 1
Replacing 72
 1:  1000    3
 2:  2000   42
 3:  1001    3
 4:  2001   42
 5:  1002    3
 6:  2002   42
 7:  1003    3
 8:  2003   42
 9:  1004    3
10:  2004   42
11:  1005    3
12:  2005   42
13:  1006    3
14:  2006   42
15:  1007    3
16:  2007   42
17:  1008    3
18:  2008   42
19:  1009    3
20:  2009   42
21:  1010    3
22:  2010   42
23:  1011    3
24:  2011   42
25:  1012    3
26:  2012   42
27:  1013    3
28:  2013   42
29:  1014    3
30:  2014   42
31:  1015    3
32:  2015   42
33:  1016    3
34:  2016   42
35:  1017    3
36:  2017   42
37:  1018    3
38:  2018   42
39:  1019    3
40:  2019   42
41:  1020    3
42:  2020   42
43:  1021    3
44:  2021   42
45:  1022    3
46:  2022   42
47:  1023    3
48:  2023   42
49:  1024    3
50:  2024   42
51:  1025    3
52:  2025   42
53:  1026    3
54:  2026   42
55:  1027    3
56:  2027   42
57:  1028    3
58:  2028   42
59:  1029    3
60:  2029   42
61:  1030    3
62:  2030   42
63:  1031    3
64:  2031   42
65:  1032    3
66:  2032   42
67:  1033    3
68:  2033   42
69:  1034    3
70:  2034   42
71:  1035    3
72:  2035   42
Found 0 values in range
Counting number of voxels in first frame
Found 0 voxels in final mask
Count: 0 0.000000 16777216 0.000000
mri_binarize done

Started at Sat Jan 11 00:03:15 CST 2020
Ended   at Sat Jan 11 00:03:23 CST 2020
Apas2aseg-Run-Time-Sec 8

apas2aseg Done
#--------------------------------------------
#@# ASeg Stats Sat Jan 11 00:03:24 CST 2020
/study2/emowrap/data/freesurfer/subjects/066

 mri_segstats --seg mri/aseg.mgz --sum stats/aseg.stats --pv mri/norm.mgz --empty --brainmask mri/brainmask.mgz --brain-vol-from-seg --excludeid 0 --excl-ctxgmwm --supratent --subcortgray --in mri/norm.mgz --in-intensity-name norm --in-intensity-units MR --etiv --surf-wm-vol --surf-ctx-vol --totalgray --euler --ctab /apps/x86_64_sci7/freesurfer-6.0.0/ASegStatsLUT.txt --subject 066


$Id: mri_segstats.c,v 1.121 2016/05/31 17:27:11 greve Exp $
cwd
cmdline mri_segstats --seg mri/aseg.mgz --sum stats/aseg.stats --pv mri/norm.mgz --empty --brainmask mri/brainmask.mgz --brain-vol-from-seg --excludeid 0 --excl-ctxgmwm --supratent --subcortgray --in mri/norm.mgz --in-intensity-name norm --in-intensity-units MR --etiv --surf-wm-vol --surf-ctx-vol --totalgray --euler --ctab /apps/x86_64_sci7/freesurfer-6.0.0/ASegStatsLUT.txt --subject 066
sysname  Linux
hostname c139.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
UseRobust  0
atlas_icv (eTIV) = 1534407 mm^3    (det: 1.269614 )
Computing euler number
orig.nofix lheno = -226, rheno = -252
orig.nofix lhholes =  114, rhholes = 127
Loading mri/aseg.mgz
Getting Brain Volume Statistics
lhCtxGM: 233824.049 233961.000  diff= -137.0  pctdiff=-0.059
rhCtxGM: 241862.704 241136.000  diff=  726.7  pctdiff= 0.300
lhCtxWM: 200251.579 200297.000  diff=  -45.4  pctdiff=-0.023
rhCtxWM: 224084.947 226662.000  diff=-2577.1  pctdiff=-1.150
SubCortGMVol  52283.000
SupraTentVol  979052.281 (978627.000) diff=425.281 pctdiff=0.043
SupraTentVolNotVent  955192.281 (954767.000) diff=425.281 pctdiff=0.045
BrainSegVol  1109780.000 (1106890.000) diff=2890.000 pctdiff=0.260
BrainSegVolNotVent  1081878.000 (1079790.281) diff=2087.719 pctdiff=0.193
BrainSegVolNotVent  1081878.000
CerebellumVol 127056.000
VentChorVol   23860.000
3rd4th5thCSF   4042.000
CSFVol  1153.000, OptChiasmVol    54.000
MaskVol 1582486.000
Loading mri/norm.mgz
Loading mri/norm.mgz
Voxel Volume is 1 mm^3
Generating list of segmentation ids
Found  50 segmentations
Computing statistics for each segmentation

Reporting on  45 segmentations
Using PrintSegStat
mri_segstats done
#-----------------------------------------
#@# WMParc Sat Jan 11 00:08:19 CST 2020
/study2/emowrap/data/freesurfer/subjects/066

 mri_aparc2aseg --s 066 --labelwm --hypo-as-wm --rip-unknown --volmask --o mri/wmparc.mgz --ctxseg aparc+aseg.mgz

SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
subject 066
outvol mri/wmparc.mgz
useribbon 0
baseoffset 0
labeling wm
labeling hypo-intensities as wm
dmaxctx 5.000000
RipUnknown 1
CtxSeg /study2/emowrap/data/freesurfer/subjects/066/mri/aparc+aseg.mgz

Reading lh white surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white

Reading lh pial surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.pial

Loading lh annotations from /study2/emowrap/data/freesurfer/subjects/066/label/lh.aparc.annot
reading colortable from annotation file...
colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)

Reading rh white surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white

Reading rh pial surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.pial

Loading rh annotations from /study2/emowrap/data/freesurfer/subjects/066/label/rh.aparc.annot
reading colortable from annotation file...
colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
Have color table for lh white annotation
Have color table for rh white annotation
Loading ribbon segmentation from /study2/emowrap/data/freesurfer/subjects/066/mri/ribbon.mgz
Loading filled from /study2/emowrap/data/freesurfer/subjects/066/mri/ribbon.mgz
Ripping vertices labeled as unkown
Ripped 8003 vertices from left hemi
Ripped 7396 vertices from right hemi

Building hash of lh white

Building hash of lh pial

Building hash of rh white

Building hash of rh pial

Loading aseg from /study2/emowrap/data/freesurfer/subjects/066/mri/aseg.mgz
Loading Ctx Seg File /study2/emowrap/data/freesurfer/subjects/066/mri/aparc+aseg.mgz
ASeg Vox2RAS: -----------
-1.00000   0.00000   0.00000   128.00000;
 0.00000   0.00000   1.00000  -128.00000;
 0.00000  -1.00000   0.00000   128.00000;
 0.00000   0.00000   0.00000   1.00000;
-------------------------

Labeling Slice
  0   1   2   3   4   5   6   7   8   9  10  11  12  13  14  15  16  17  18  19
 20  21  22  23  24  25  26  27  28  29  30  31  32  33  34  35  36  37  38  39
 40  41  42  43  44  45  46  47  48  49  50  51  52  53  54  55  56  57  58  59
 60  61  62  63  64  65  66  67  68  69  70  71  72  73  74  75  76  77  78  79
 80  81  82  83  84  85  86  87  88  89  90  91  92  93  94  95  96  97  98  99
100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119
120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139
140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159
160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179
180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199
200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219
220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239
240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 nctx = 899228
Used brute-force search on 8 voxels
Fixing Parahip LH WM
  Found 11 clusters
     0 k 1.000000
     1 k 9.000000
     2 k 3.000000
     3 k 2.000000
     4 k 1.000000
     5 k 1.000000
     6 k 2.000000
     7 k 2.000000
     8 k 2.000000
     9 k 1106.000000
     10 k 8.000000
Fixing Parahip RH WM
  Found 11 clusters
     0 k 1424.000000
     1 k 1.000000
     2 k 1.000000
     3 k 1.000000
     4 k 1.000000
     5 k 1.000000
     6 k 1.000000
     7 k 17.000000
     8 k 1.000000
     9 k 1.000000
     10 k 1.000000
Writing output aseg to mri/wmparc.mgz

 mri_segstats --seg mri/wmparc.mgz --sum stats/wmparc.stats --pv mri/norm.mgz --excludeid 0 --brainmask mri/brainmask.mgz --in mri/norm.mgz --in-intensity-name norm --in-intensity-units MR --subject 066 --surf-wm-vol --ctab /apps/x86_64_sci7/freesurfer-6.0.0/WMParcStatsLUT.txt --etiv


$Id: mri_segstats.c,v 1.121 2016/05/31 17:27:11 greve Exp $
cwd
cmdline mri_segstats --seg mri/wmparc.mgz --sum stats/wmparc.stats --pv mri/norm.mgz --excludeid 0 --brainmask mri/brainmask.mgz --in mri/norm.mgz --in-intensity-name norm --in-intensity-units MR --subject 066 --surf-wm-vol --ctab /apps/x86_64_sci7/freesurfer-6.0.0/WMParcStatsLUT.txt --etiv
sysname  Linux
hostname c139.keck.waisman.wisc.edu
machine  x86_64
user     quinlan
UseRobust  0
atlas_icv (eTIV) = 1534407 mm^3    (det: 1.269614 )
Loading mri/wmparc.mgz
Getting Brain Volume Statistics
lhCtxGM: 233824.049 233961.000  diff= -137.0  pctdiff=-0.059
rhCtxGM: 241862.704 241136.000  diff=  726.7  pctdiff= 0.300
lhCtxWM: 200251.579 200297.000  diff=  -45.4  pctdiff=-0.023
rhCtxWM: 224084.947 226662.000  diff=-2577.1  pctdiff=-1.150
SubCortGMVol  52283.000
SupraTentVol  979052.281 (978627.000) diff=425.281 pctdiff=0.043
SupraTentVolNotVent  955192.281 (954767.000) diff=425.281 pctdiff=0.045
BrainSegVol  1109780.000 (1106890.000) diff=2890.000 pctdiff=0.260
BrainSegVolNotVent  1081878.000 (1079790.281) diff=2087.719 pctdiff=0.193
BrainSegVolNotVent  1081878.000
CerebellumVol 127056.000
VentChorVol   23860.000
3rd4th5thCSF   4042.000
CSFVol  1153.000, OptChiasmVol    54.000
MaskVol 1582486.000
Loading mri/norm.mgz
Loading mri/norm.mgz
Voxel Volume is 1 mm^3
Generating list of segmentation ids
Found 390 segmentations
Computing statistics for each segmentation

Reporting on  70 segmentations
Using PrintSegStat
mri_segstats done
/study2/emowrap/data/freesurfer/subjects/066/label
#--------------------------------------------
#@# BA_exvivo Labels lh Sat Jan 11 00:23:23 CST 2020

 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA1_exvivo.label --trgsubject 066 --trglabel ./lh.BA1_exvivo.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA1_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.BA1_exvivo.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 4129 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  4129 nlabel points
Performing mapping from target back to the source label 144820
Number of reverse mapping hits = 375
Checking for and removing duplicates
Writing label file ./lh.BA1_exvivo.label 4504
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA2_exvivo.label --trgsubject 066 --trglabel ./lh.BA2_exvivo.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA2_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.BA2_exvivo.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 7909 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  7909 nlabel points
Performing mapping from target back to the source label 144820
Number of reverse mapping hits = 427
Checking for and removing duplicates
Writing label file ./lh.BA2_exvivo.label 8336
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA3a_exvivo.label --trgsubject 066 --trglabel ./lh.BA3a_exvivo.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA3a_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.BA3a_exvivo.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 4077 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  4077 nlabel points
Performing mapping from target back to the source label 144820
Number of reverse mapping hits = 154
Checking for and removing duplicates
Writing label file ./lh.BA3a_exvivo.label 4231
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA3b_exvivo.label --trgsubject 066 --trglabel ./lh.BA3b_exvivo.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA3b_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.BA3b_exvivo.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 5983 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  5983 nlabel points
Performing mapping from target back to the source label 144820
Number of reverse mapping hits = 333
Checking for and removing duplicates
Writing label file ./lh.BA3b_exvivo.label 6316
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA4a_exvivo.label --trgsubject 066 --trglabel ./lh.BA4a_exvivo.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA4a_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.BA4a_exvivo.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 5784 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  5784 nlabel points
Performing mapping from target back to the source label 144820
Number of reverse mapping hits = 520
Checking for and removing duplicates
Writing label file ./lh.BA4a_exvivo.label 6304
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA4p_exvivo.label --trgsubject 066 --trglabel ./lh.BA4p_exvivo.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA4p_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.BA4p_exvivo.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 4070 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  4070 nlabel points
Performing mapping from target back to the source label 144820
Number of reverse mapping hits = 270
Checking for and removing duplicates
Writing label file ./lh.BA4p_exvivo.label 4340
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA6_exvivo.label --trgsubject 066 --trglabel ./lh.BA6_exvivo.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA6_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.BA6_exvivo.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 13589 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  13589 nlabel points
Performing mapping from target back to the source label 144820
Number of reverse mapping hits = 2728
Checking for and removing duplicates
Writing label file ./lh.BA6_exvivo.label 16317
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA44_exvivo.label --trgsubject 066 --trglabel ./lh.BA44_exvivo.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA44_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.BA44_exvivo.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 4181 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  4181 nlabel points
Performing mapping from target back to the source label 144820
Number of reverse mapping hits = 329
Checking for and removing duplicates
Writing label file ./lh.BA44_exvivo.label 4510
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA45_exvivo.label --trgsubject 066 --trglabel ./lh.BA45_exvivo.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA45_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.BA45_exvivo.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 3422 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  3422 nlabel points
Performing mapping from target back to the source label 144820
Number of reverse mapping hits = 238
Checking for and removing duplicates
Writing label file ./lh.BA45_exvivo.label 3660
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.V1_exvivo.label --trgsubject 066 --trglabel ./lh.V1_exvivo.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.V1_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.V1_exvivo.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 4641 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  4641 nlabel points
Performing mapping from target back to the source label 144820
Number of reverse mapping hits = 2382
Checking for and removing duplicates
Writing label file ./lh.V1_exvivo.label 7023
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.V2_exvivo.label --trgsubject 066 --trglabel ./lh.V2_exvivo.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.V2_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.V2_exvivo.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 8114 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  8114 nlabel points
Performing mapping from target back to the source label 144820
Number of reverse mapping hits = 4332
Checking for and removing duplicates
Writing label file ./lh.V2_exvivo.label 12446
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.MT_exvivo.label --trgsubject 066 --trglabel ./lh.MT_exvivo.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.MT_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.MT_exvivo.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 2018 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  2018 nlabel points
Performing mapping from target back to the source label 144820
Number of reverse mapping hits = 144
Checking for and removing duplicates
Writing label file ./lh.MT_exvivo.label 2162
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.entorhinal_exvivo.label --trgsubject 066 --trglabel ./lh.entorhinal_exvivo.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.entorhinal_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.entorhinal_exvivo.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 1290 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  1290 nlabel points
Performing mapping from target back to the source label 144820
Number of reverse mapping hits = 119
Checking for and removing duplicates
Writing label file ./lh.entorhinal_exvivo.label 1409
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.perirhinal_exvivo.label --trgsubject 066 --trglabel ./lh.perirhinal_exvivo.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.perirhinal_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.perirhinal_exvivo.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 1199 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  1199 nlabel points
Performing mapping from target back to the source label 144820
Number of reverse mapping hits = 85
Checking for and removing duplicates
Writing label file ./lh.perirhinal_exvivo.label 1284
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA1_exvivo.thresh.label --trgsubject 066 --trglabel ./lh.BA1_exvivo.thresh.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA1_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.BA1_exvivo.thresh.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 1014 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  1014 nlabel points
Performing mapping from target back to the source label 144820
Number of reverse mapping hits = 170
Checking for and removing duplicates
Writing label file ./lh.BA1_exvivo.thresh.label 1184
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA2_exvivo.thresh.label --trgsubject 066 --trglabel ./lh.BA2_exvivo.thresh.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA2_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.BA2_exvivo.thresh.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 2092 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  2092 nlabel points
Performing mapping from target back to the source label 144820
Number of reverse mapping hits = 80
Checking for and removing duplicates
Writing label file ./lh.BA2_exvivo.thresh.label 2172
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA3a_exvivo.thresh.label --trgsubject 066 --trglabel ./lh.BA3a_exvivo.thresh.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA3a_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.BA3a_exvivo.thresh.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 1504 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  1504 nlabel points
Performing mapping from target back to the source label 144820
Number of reverse mapping hits = 29
Checking for and removing duplicates
Writing label file ./lh.BA3a_exvivo.thresh.label 1533
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA3b_exvivo.thresh.label --trgsubject 066 --trglabel ./lh.BA3b_exvivo.thresh.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA3b_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.BA3b_exvivo.thresh.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 1996 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  1996 nlabel points
Performing mapping from target back to the source label 144820
Number of reverse mapping hits = 93
Checking for and removing duplicates
Writing label file ./lh.BA3b_exvivo.thresh.label 2089
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA4a_exvivo.thresh.label --trgsubject 066 --trglabel ./lh.BA4a_exvivo.thresh.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA4a_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.BA4a_exvivo.thresh.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 2319 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  2319 nlabel points
Performing mapping from target back to the source label 144820
Number of reverse mapping hits = 205
Checking for and removing duplicates
Writing label file ./lh.BA4a_exvivo.thresh.label 2524
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA4p_exvivo.thresh.label --trgsubject 066 --trglabel ./lh.BA4p_exvivo.thresh.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA4p_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.BA4p_exvivo.thresh.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 1549 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  1549 nlabel points
Performing mapping from target back to the source label 144820
Number of reverse mapping hits = 119
Checking for and removing duplicates
Writing label file ./lh.BA4p_exvivo.thresh.label 1668
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA6_exvivo.thresh.label --trgsubject 066 --trglabel ./lh.BA6_exvivo.thresh.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA6_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.BA6_exvivo.thresh.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 7035 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  7035 nlabel points
Performing mapping from target back to the source label 144820
Number of reverse mapping hits = 908
Checking for and removing duplicates
Writing label file ./lh.BA6_exvivo.thresh.label 7943
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA44_exvivo.thresh.label --trgsubject 066 --trglabel ./lh.BA44_exvivo.thresh.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA44_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.BA44_exvivo.thresh.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 1912 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  1912 nlabel points
Performing mapping from target back to the source label 144820
Number of reverse mapping hits = 181
Checking for and removing duplicates
Writing label file ./lh.BA44_exvivo.thresh.label 2093
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA45_exvivo.thresh.label --trgsubject 066 --trglabel ./lh.BA45_exvivo.thresh.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.BA45_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.BA45_exvivo.thresh.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 1151 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  1151 nlabel points
Performing mapping from target back to the source label 144820
Number of reverse mapping hits = 82
Checking for and removing duplicates
Writing label file ./lh.BA45_exvivo.thresh.label 1233
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.V1_exvivo.thresh.label --trgsubject 066 --trglabel ./lh.V1_exvivo.thresh.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.V1_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.V1_exvivo.thresh.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 3405 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  3405 nlabel points
Performing mapping from target back to the source label 144820
Number of reverse mapping hits = 1770
Checking for and removing duplicates
Writing label file ./lh.V1_exvivo.thresh.label 5175
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.V2_exvivo.thresh.label --trgsubject 066 --trglabel ./lh.V2_exvivo.thresh.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.V2_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.V2_exvivo.thresh.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 3334 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  3334 nlabel points
Performing mapping from target back to the source label 144820
Number of reverse mapping hits = 1620
Checking for and removing duplicates
Writing label file ./lh.V2_exvivo.thresh.label 4954
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.MT_exvivo.thresh.label --trgsubject 066 --trglabel ./lh.MT_exvivo.thresh.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.MT_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.MT_exvivo.thresh.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 513 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  513 nlabel points
Performing mapping from target back to the source label 144820
Number of reverse mapping hits = 30
Checking for and removing duplicates
Writing label file ./lh.MT_exvivo.thresh.label 543
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.entorhinal_exvivo.thresh.label --trgsubject 066 --trglabel ./lh.entorhinal_exvivo.thresh.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.entorhinal_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.entorhinal_exvivo.thresh.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 470 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  470 nlabel points
Performing mapping from target back to the source label 144820
Number of reverse mapping hits = 66
Checking for and removing duplicates
Writing label file ./lh.entorhinal_exvivo.thresh.label 536
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.perirhinal_exvivo.thresh.label --trgsubject 066 --trglabel ./lh.perirhinal_exvivo.thresh.label --hemi lh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/lh.perirhinal_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./lh.perirhinal_exvivo.thresh.label
regmethod = surface

srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 450 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/lh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  450 nlabel points
Performing mapping from target back to the source label 144820
Number of reverse mapping hits = 28
Checking for and removing duplicates
Writing label file ./lh.perirhinal_exvivo.thresh.label 478
mri_label2label: Done


 mris_label2annot --s 066 --hemi lh --ctab /apps/x86_64_sci7/freesurfer-6.0.0/average/colortable_BA.txt --l lh.BA1_exvivo.label --l lh.BA2_exvivo.label --l lh.BA3a_exvivo.label --l lh.BA3b_exvivo.label --l lh.BA4a_exvivo.label --l lh.BA4p_exvivo.label --l lh.BA6_exvivo.label --l lh.BA44_exvivo.label --l lh.BA45_exvivo.label --l lh.V1_exvivo.label --l lh.V2_exvivo.label --l lh.MT_exvivo.label --l lh.entorhinal_exvivo.label --l lh.perirhinal_exvivo.label --a BA_exvivo --maxstatwinner --noverbose

Reading ctab /apps/x86_64_sci7/freesurfer-6.0.0/average/colortable_BA.txt
Number of ctab entries 15

$Id: mris_label2annot.c,v 1.20 2016/01/07 23:28:11 greve Exp $
cwd /study2/emowrap/data/freesurfer/subjects/066/label
cmdline mris_label2annot --s 066 --hemi lh --ctab /apps/x86_64_sci7/freesurfer-6.0.0/average/colortable_BA.txt --l lh.BA1_exvivo.label --l lh.BA2_exvivo.label --l lh.BA3a_exvivo.label --l lh.BA3b_exvivo.label --l lh.BA4a_exvivo.label --l lh.BA4p_exvivo.label --l lh.BA6_exvivo.label --l lh.BA44_exvivo.label --l lh.BA45_exvivo.label --l lh.V1_exvivo.label --l lh.V2_exvivo.label --l lh.MT_exvivo.label --l lh.entorhinal_exvivo.label --l lh.perirhinal_exvivo.label --a BA_exvivo --maxstatwinner --noverbose
sysname  Linux
hostname c139.keck.waisman.wisc.edu
machine  x86_64
user     quinlan

subject 066
hemi    lh
SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
ColorTable /apps/x86_64_sci7/freesurfer-6.0.0/average/colortable_BA.txt
AnnotName  BA_exvivo
nlables 14
LabelThresh 0 0.000000
Loading /study2/emowrap/data/freesurfer/subjects/066/surf/lh.orig
 1 1530880 BA1_exvivo
 2 16749699 BA2_exvivo
 3 16711680 BA3a_exvivo
 4 3368703 BA3b_exvivo
 5 1376196 BA4a_exvivo
 6 13382655 BA4p_exvivo
 7 10036737 BA6_exvivo
 8 2490521 BA44_exvivo
 9 39283 BA45_exvivo
10 3993 V1_exvivo
11 8508928 V2_exvivo
12 10027163 MT_exvivo
13 16422433 perirhinal_exvivo
14 16392598 entorhinal_exvivo
Mapping unhit to unknown
Found 100995 unhit vertices
Writing annot to /study2/emowrap/data/freesurfer/subjects/066/label/lh.BA_exvivo.annot

 mris_label2annot --s 066 --hemi lh --ctab /apps/x86_64_sci7/freesurfer-6.0.0/average/colortable_BA.txt --l lh.BA1_exvivo.thresh.label --l lh.BA2_exvivo.thresh.label --l lh.BA3a_exvivo.thresh.label --l lh.BA3b_exvivo.thresh.label --l lh.BA4a_exvivo.thresh.label --l lh.BA4p_exvivo.thresh.label --l lh.BA6_exvivo.thresh.label --l lh.BA44_exvivo.thresh.label --l lh.BA45_exvivo.thresh.label --l lh.V1_exvivo.thresh.label --l lh.V2_exvivo.thresh.label --l lh.MT_exvivo.thresh.label --l lh.entorhinal_exvivo.thresh.label --l lh.perirhinal_exvivo.thresh.label --a BA_exvivo.thresh --maxstatwinner --noverbose

Reading ctab /apps/x86_64_sci7/freesurfer-6.0.0/average/colortable_BA.txt
Number of ctab entries 15

$Id: mris_label2annot.c,v 1.20 2016/01/07 23:28:11 greve Exp $
cwd /study2/emowrap/data/freesurfer/subjects/066/label
cmdline mris_label2annot --s 066 --hemi lh --ctab /apps/x86_64_sci7/freesurfer-6.0.0/average/colortable_BA.txt --l lh.BA1_exvivo.thresh.label --l lh.BA2_exvivo.thresh.label --l lh.BA3a_exvivo.thresh.label --l lh.BA3b_exvivo.thresh.label --l lh.BA4a_exvivo.thresh.label --l lh.BA4p_exvivo.thresh.label --l lh.BA6_exvivo.thresh.label --l lh.BA44_exvivo.thresh.label --l lh.BA45_exvivo.thresh.label --l lh.V1_exvivo.thresh.label --l lh.V2_exvivo.thresh.label --l lh.MT_exvivo.thresh.label --l lh.entorhinal_exvivo.thresh.label --l lh.perirhinal_exvivo.thresh.label --a BA_exvivo.thresh --maxstatwinner --noverbose
sysname  Linux
hostname c139.keck.waisman.wisc.edu
machine  x86_64
user     quinlan

subject 066
hemi    lh
SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
ColorTable /apps/x86_64_sci7/freesurfer-6.0.0/average/colortable_BA.txt
AnnotName  BA_exvivo.thresh
nlables 14
LabelThresh 0 0.000000
Loading /study2/emowrap/data/freesurfer/subjects/066/surf/lh.orig
 1 1530880 BA1_exvivo
 2 16749699 BA2_exvivo
 3 16711680 BA3a_exvivo
 4 3368703 BA3b_exvivo
 5 1376196 BA4a_exvivo
 6 13382655 BA4p_exvivo
 7 10036737 BA6_exvivo
 8 2490521 BA44_exvivo
 9 39283 BA45_exvivo
10 3993 V1_exvivo
11 8508928 V2_exvivo
12 10027163 MT_exvivo
13 16422433 perirhinal_exvivo
14 16392598 entorhinal_exvivo
Mapping unhit to unknown
Found 119111 unhit vertices
Writing annot to /study2/emowrap/data/freesurfer/subjects/066/label/lh.BA_exvivo.thresh.annot

 mris_anatomical_stats -th3 -mgz -f ../stats/lh.BA_exvivo.stats -b -a ./lh.BA_exvivo.annot -c ./BA_exvivo.ctab 066 lh white

computing statistics for each annotation in ./lh.BA_exvivo.annot.
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/wm.mgz...
reading input surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white...
reading input pial surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.pial...
reading input white surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white...
INFO: using TH3 volume calc
INFO: assuming MGZ format for volumes.
Using TH3 vertex volume calc
Total face volume 239714
Total vertex volume 236277 (mask=0)
reading colortable from annotation file...
colortable with 15 entries read (originally /apps/x86_64_sci7/freesurfer-6.0.0/average/colortable_BA.txt)
Saving annotation colortable ./BA_exvivo.ctab

table columns are:
    number of vertices
    total surface area (mm^2)
    total gray matter volume (mm^3)
    average cortical thickness +- standard deviation (mm)
    integrated rectified mean curvature
    integrated rectified Gaussian curvature
    folding index
    intrinsic curvature index
    structure name

atlas_icv (eTIV) = 1534407 mm^3    (det: 1.269614 )
lhCtxGM: 233824.049 233961.000  diff= -137.0  pctdiff=-0.059
rhCtxGM: 241862.704 241136.000  diff=  726.7  pctdiff= 0.300
lhCtxWM: 200251.579 200297.000  diff=  -45.4  pctdiff=-0.023
rhCtxWM: 224084.947 226662.000  diff=-2577.1  pctdiff=-1.150
SubCortGMVol  52283.000
SupraTentVol  979052.281 (978627.000) diff=425.281 pctdiff=0.043
SupraTentVolNotVent  955192.281 (954767.000) diff=425.281 pctdiff=0.045
BrainSegVol  1109780.000 (1106890.000) diff=2890.000 pctdiff=0.260
BrainSegVolNotVent  1081878.000 (1079790.281) diff=2087.719 pctdiff=0.193
BrainSegVolNotVent  1081878.000
CerebellumVol 127056.000
VentChorVol   23860.000
3rd4th5thCSF   4042.000
CSFVol  1153.000, OptChiasmVol    54.000
MaskVol 1582486.000
 1341    599   1769  2.222 0.556     0.114     0.049       23     2.6  BA1_exvivo
 3467   2242   4740  2.033 0.487     0.111     0.026       41     3.9  BA2_exvivo
  989    710   1117  1.974 0.444     0.126     0.028        9     1.2  BA3a_exvivo
 2170   1397   3130  2.001 0.557     0.096     0.022       20     2.0  BA3b_exvivo
 1770    866   2789  2.773 0.606     0.084     0.025       15     1.8  BA4a_exvivo
 1195    743   1825  2.494 0.505     0.075     0.021        8     1.1  BA4p_exvivo
11431   7307  21822  2.506 0.635     0.124     0.047      246    26.3  BA6_exvivo
 2329   1664   4556  2.414 0.457     0.118     0.029       34     2.6  BA44_exvivo
 2078   1520   4417  2.356 0.573     0.146     0.036       39     3.0  BA45_exvivo
 4621   2796   5719  1.932 0.636     0.123     0.036       58     7.5  V1_exvivo
 9616   5852  12831  1.986 0.608     0.135     0.034      130    13.3  V2_exvivo
 1547   1075   2705  2.344 0.688     0.127     0.023       17     1.6  MT_exvivo
  613    398   1734  3.152 0.767     0.122     0.036        8     0.8  perirhinal_exvivo
  658    502   1481  2.715 0.710     0.147     0.029       11     0.8  entorhinal_exvivo

 mris_anatomical_stats -th3 -mgz -f ../stats/lh.BA_exvivo.thresh.stats -b -a ./lh.BA_exvivo.thresh.annot -c ./BA_exvivo.thresh.ctab 066 lh white

computing statistics for each annotation in ./lh.BA_exvivo.thresh.annot.
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/wm.mgz...
reading input surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white...
reading input pial surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.pial...
reading input white surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white...
INFO: using TH3 volume calc
INFO: assuming MGZ format for volumes.
Using TH3 vertex volume calc
Total face volume 239714
Total vertex volume 236277 (mask=0)
reading colortable from annotation file...
colortable with 15 entries read (originally /apps/x86_64_sci7/freesurfer-6.0.0/average/colortable_BA.txt)
Saving annotation colortable ./BA_exvivo.thresh.ctab

table columns are:
    number of vertices
    total surface area (mm^2)
    total gray matter volume (mm^3)
    average cortical thickness +- standard deviation (mm)
    integrated rectified mean curvature
    integrated rectified Gaussian curvature
    folding index
    intrinsic curvature index
    structure name

atlas_icv (eTIV) = 1534407 mm^3    (det: 1.269614 )
lhCtxGM: 233824.049 233961.000  diff= -137.0  pctdiff=-0.059
rhCtxGM: 241862.704 241136.000  diff=  726.7  pctdiff= 0.300
lhCtxWM: 200251.579 200297.000  diff=  -45.4  pctdiff=-0.023
rhCtxWM: 224084.947 226662.000  diff=-2577.1  pctdiff=-1.150
SubCortGMVol  52283.000
SupraTentVol  979052.281 (978627.000) diff=425.281 pctdiff=0.043
SupraTentVolNotVent  955192.281 (954767.000) diff=425.281 pctdiff=0.045
BrainSegVol  1109780.000 (1106890.000) diff=2890.000 pctdiff=0.260
BrainSegVolNotVent  1081878.000 (1079790.281) diff=2087.719 pctdiff=0.193
BrainSegVolNotVent  1081878.000
CerebellumVol 127056.000
VentChorVol   23860.000
3rd4th5thCSF   4042.000
CSFVol  1153.000, OptChiasmVol    54.000
MaskVol 1582486.000
  908    355   1107  2.263 0.574     0.119     0.046       17     1.8  BA1_exvivo
 1375    858   1770  1.960 0.454     0.088     0.017        7     0.9  BA2_exvivo
  781    581    872  1.902 0.402     0.133     0.030        6     0.9  BA3a_exvivo
 1353    874   1564  1.784 0.448     0.072     0.012        5     0.6  BA3b_exvivo
 1637    840   2597  2.711 0.614     0.081     0.024       13     1.5  BA4a_exvivo
 1051    637   1492  2.444 0.509     0.080     0.021        9     1.0  BA4p_exvivo
 5805   3507  10716  2.574 0.611     0.115     0.036       82     9.2  BA6_exvivo
 1468   1072   3067  2.407 0.408     0.127     0.031       30     1.7  BA44_exvivo
  851    658   2201  2.527 0.603     0.152     0.040       17     1.4  BA45_exvivo
 4849   2934   5981  1.911 0.631     0.122     0.036       60     7.7  V1_exvivo
 4561   2879   5796  1.852 0.574     0.145     0.038       68     7.1  V2_exvivo
  389    274    758  2.470 0.816     0.144     0.023        6     0.3  MT_exvivo
  326    205    892  3.082 0.778     0.111     0.044        4     0.5  perirhinal_exvivo
  355    283    798  2.853 0.633     0.166     0.032        8     0.6  entorhinal_exvivo
#--------------------------------------------
#@# BA_exvivo Labels rh Sat Jan 11 00:31:32 CST 2020

 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA1_exvivo.label --trgsubject 066 --trglabel ./rh.BA1_exvivo.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA1_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.BA1_exvivo.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 3962 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  3962 nlabel points
Performing mapping from target back to the source label 151460
Number of reverse mapping hits = 450
Checking for and removing duplicates
Writing label file ./rh.BA1_exvivo.label 4412
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA2_exvivo.label --trgsubject 066 --trglabel ./rh.BA2_exvivo.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA2_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.BA2_exvivo.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 6687 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  6687 nlabel points
Performing mapping from target back to the source label 151460
Number of reverse mapping hits = 526
Checking for and removing duplicates
Writing label file ./rh.BA2_exvivo.label 7213
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA3a_exvivo.label --trgsubject 066 --trglabel ./rh.BA3a_exvivo.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA3a_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.BA3a_exvivo.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 3980 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  3980 nlabel points
Performing mapping from target back to the source label 151460
Number of reverse mapping hits = 161
Checking for and removing duplicates
Writing label file ./rh.BA3a_exvivo.label 4141
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA3b_exvivo.label --trgsubject 066 --trglabel ./rh.BA3b_exvivo.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA3b_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.BA3b_exvivo.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 4522 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  4522 nlabel points
Performing mapping from target back to the source label 151460
Number of reverse mapping hits = 290
Checking for and removing duplicates
Writing label file ./rh.BA3b_exvivo.label 4812
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA4a_exvivo.label --trgsubject 066 --trglabel ./rh.BA4a_exvivo.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA4a_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.BA4a_exvivo.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 5747 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  5747 nlabel points
Performing mapping from target back to the source label 151460
Number of reverse mapping hits = 798
Checking for and removing duplicates
Writing label file ./rh.BA4a_exvivo.label 6545
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA4p_exvivo.label --trgsubject 066 --trglabel ./rh.BA4p_exvivo.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA4p_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.BA4p_exvivo.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 4473 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  4473 nlabel points
Performing mapping from target back to the source label 151460
Number of reverse mapping hits = 431
Checking for and removing duplicates
Writing label file ./rh.BA4p_exvivo.label 4904
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA6_exvivo.label --trgsubject 066 --trglabel ./rh.BA6_exvivo.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA6_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.BA6_exvivo.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 12256 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  12256 nlabel points
Performing mapping from target back to the source label 151460
Number of reverse mapping hits = 1660
Checking for and removing duplicates
Writing label file ./rh.BA6_exvivo.label 13916
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA44_exvivo.label --trgsubject 066 --trglabel ./rh.BA44_exvivo.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA44_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.BA44_exvivo.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 6912 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  6912 nlabel points
Performing mapping from target back to the source label 151460
Number of reverse mapping hits = 1695
Checking for and removing duplicates
Writing label file ./rh.BA44_exvivo.label 8607
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA45_exvivo.label --trgsubject 066 --trglabel ./rh.BA45_exvivo.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA45_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.BA45_exvivo.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 5355 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  5355 nlabel points
Performing mapping from target back to the source label 151460
Number of reverse mapping hits = 2014
Checking for and removing duplicates
Writing label file ./rh.BA45_exvivo.label 7369
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.V1_exvivo.label --trgsubject 066 --trglabel ./rh.V1_exvivo.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.V1_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.V1_exvivo.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 4727 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  4727 nlabel points
Performing mapping from target back to the source label 151460
Number of reverse mapping hits = 2580
Checking for and removing duplicates
Writing label file ./rh.V1_exvivo.label 7307
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.V2_exvivo.label --trgsubject 066 --trglabel ./rh.V2_exvivo.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.V2_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.V2_exvivo.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 8016 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  8016 nlabel points
Performing mapping from target back to the source label 151460
Number of reverse mapping hits = 4566
Checking for and removing duplicates
Writing label file ./rh.V2_exvivo.label 12582
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.MT_exvivo.label --trgsubject 066 --trglabel ./rh.MT_exvivo.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.MT_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.MT_exvivo.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 1932 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  1932 nlabel points
Performing mapping from target back to the source label 151460
Number of reverse mapping hits = 574
Checking for and removing duplicates
Writing label file ./rh.MT_exvivo.label 2506
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.entorhinal_exvivo.label --trgsubject 066 --trglabel ./rh.entorhinal_exvivo.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.entorhinal_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.entorhinal_exvivo.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 1038 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  1038 nlabel points
Performing mapping from target back to the source label 151460
Number of reverse mapping hits = 129
Checking for and removing duplicates
Writing label file ./rh.entorhinal_exvivo.label 1167
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.perirhinal_exvivo.label --trgsubject 066 --trglabel ./rh.perirhinal_exvivo.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.perirhinal_exvivo.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.perirhinal_exvivo.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 752 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  752 nlabel points
Performing mapping from target back to the source label 151460
Number of reverse mapping hits = 74
Checking for and removing duplicates
Writing label file ./rh.perirhinal_exvivo.label 826
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA1_exvivo.thresh.label --trgsubject 066 --trglabel ./rh.BA1_exvivo.thresh.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA1_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.BA1_exvivo.thresh.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 876 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  876 nlabel points
Performing mapping from target back to the source label 151460
Number of reverse mapping hits = 171
Checking for and removing duplicates
Writing label file ./rh.BA1_exvivo.thresh.label 1047
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA2_exvivo.thresh.label --trgsubject 066 --trglabel ./rh.BA2_exvivo.thresh.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA2_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.BA2_exvivo.thresh.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 2688 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  2688 nlabel points
Performing mapping from target back to the source label 151460
Number of reverse mapping hits = 130
Checking for and removing duplicates
Writing label file ./rh.BA2_exvivo.thresh.label 2818
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA3a_exvivo.thresh.label --trgsubject 066 --trglabel ./rh.BA3a_exvivo.thresh.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA3a_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.BA3a_exvivo.thresh.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 1698 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  1698 nlabel points
Performing mapping from target back to the source label 151460
Number of reverse mapping hits = 47
Checking for and removing duplicates
Writing label file ./rh.BA3a_exvivo.thresh.label 1745
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA3b_exvivo.thresh.label --trgsubject 066 --trglabel ./rh.BA3b_exvivo.thresh.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA3b_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.BA3b_exvivo.thresh.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 2183 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  2183 nlabel points
Performing mapping from target back to the source label 151460
Number of reverse mapping hits = 81
Checking for and removing duplicates
Writing label file ./rh.BA3b_exvivo.thresh.label 2264
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA4a_exvivo.thresh.label --trgsubject 066 --trglabel ./rh.BA4a_exvivo.thresh.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA4a_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.BA4a_exvivo.thresh.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 1388 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  1388 nlabel points
Performing mapping from target back to the source label 151460
Number of reverse mapping hits = 259
Checking for and removing duplicates
Writing label file ./rh.BA4a_exvivo.thresh.label 1647
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA4p_exvivo.thresh.label --trgsubject 066 --trglabel ./rh.BA4p_exvivo.thresh.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA4p_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.BA4p_exvivo.thresh.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 1489 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  1489 nlabel points
Performing mapping from target back to the source label 151460
Number of reverse mapping hits = 215
Checking for and removing duplicates
Writing label file ./rh.BA4p_exvivo.thresh.label 1704
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA6_exvivo.thresh.label --trgsubject 066 --trglabel ./rh.BA6_exvivo.thresh.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA6_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.BA6_exvivo.thresh.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 6959 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  6959 nlabel points
Performing mapping from target back to the source label 151460
Number of reverse mapping hits = 816
Checking for and removing duplicates
Writing label file ./rh.BA6_exvivo.thresh.label 7775
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA44_exvivo.thresh.label --trgsubject 066 --trglabel ./rh.BA44_exvivo.thresh.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA44_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.BA44_exvivo.thresh.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 1012 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  1012 nlabel points
Performing mapping from target back to the source label 151460
Number of reverse mapping hits = 187
Checking for and removing duplicates
Writing label file ./rh.BA44_exvivo.thresh.label 1199
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA45_exvivo.thresh.label --trgsubject 066 --trglabel ./rh.BA45_exvivo.thresh.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.BA45_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.BA45_exvivo.thresh.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 1178 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  1178 nlabel points
Performing mapping from target back to the source label 151460
Number of reverse mapping hits = 358
Checking for and removing duplicates
Writing label file ./rh.BA45_exvivo.thresh.label 1536
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.V1_exvivo.thresh.label --trgsubject 066 --trglabel ./rh.V1_exvivo.thresh.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.V1_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.V1_exvivo.thresh.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 3232 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  3232 nlabel points
Performing mapping from target back to the source label 151460
Number of reverse mapping hits = 1728
Checking for and removing duplicates
Writing label file ./rh.V1_exvivo.thresh.label 4960
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.V2_exvivo.thresh.label --trgsubject 066 --trglabel ./rh.V2_exvivo.thresh.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.V2_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.V2_exvivo.thresh.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 3437 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  3437 nlabel points
Performing mapping from target back to the source label 151460
Number of reverse mapping hits = 2132
Checking for and removing duplicates
Writing label file ./rh.V2_exvivo.thresh.label 5569
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.MT_exvivo.thresh.label --trgsubject 066 --trglabel ./rh.MT_exvivo.thresh.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.MT_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.MT_exvivo.thresh.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 268 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  268 nlabel points
Performing mapping from target back to the source label 151460
Number of reverse mapping hits = 30
Checking for and removing duplicates
Writing label file ./rh.MT_exvivo.thresh.label 298
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.entorhinal_exvivo.thresh.label --trgsubject 066 --trglabel ./rh.entorhinal_exvivo.thresh.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.entorhinal_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.entorhinal_exvivo.thresh.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 694 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  694 nlabel points
Performing mapping from target back to the source label 151460
Number of reverse mapping hits = 83
Checking for and removing duplicates
Writing label file ./rh.entorhinal_exvivo.thresh.label 777
mri_label2label: Done


 mri_label2label --srcsubject fsaverage --srclabel /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.perirhinal_exvivo.thresh.label --trgsubject 066 --trglabel ./rh.perirhinal_exvivo.thresh.label --hemi rh --regmethod surface


srclabel = /study2/emowrap/data/freesurfer/subjects/fsaverage/label/rh.perirhinal_exvivo.thresh.label
srcsubject = fsaverage
trgsubject = 066
trglabel = ./rh.perirhinal_exvivo.thresh.label
regmethod = surface

srchemi = rh
trghemi = rh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs  = 0, 0
Use ProjFrac = 0, 0
DoPaint 0

SUBJECTS_DIR    /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Loading source label.
Found 291 points in source label.
Starting surface-based mapping
Reading source registration
 /study2/emowrap/data/freesurfer/subjects/fsaverage/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Reading target surface
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white
Reading target registration
 /study2/emowrap/data/freesurfer/subjects/066/surf/rh.sphere.reg
Rescaling ...  original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found  291 nlabel points
Performing mapping from target back to the source label 151460
Number of reverse mapping hits = 7
Checking for and removing duplicates
Writing label file ./rh.perirhinal_exvivo.thresh.label 298
mri_label2label: Done


 mris_label2annot --s 066 --hemi rh --ctab /apps/x86_64_sci7/freesurfer-6.0.0/average/colortable_BA.txt --l rh.BA1_exvivo.label --l rh.BA2_exvivo.label --l rh.BA3a_exvivo.label --l rh.BA3b_exvivo.label --l rh.BA4a_exvivo.label --l rh.BA4p_exvivo.label --l rh.BA6_exvivo.label --l rh.BA44_exvivo.label --l rh.BA45_exvivo.label --l rh.V1_exvivo.label --l rh.V2_exvivo.label --l rh.MT_exvivo.label --l rh.entorhinal_exvivo.label --l rh.perirhinal_exvivo.label --a BA_exvivo --maxstatwinner --noverbose

Reading ctab /apps/x86_64_sci7/freesurfer-6.0.0/average/colortable_BA.txt
Number of ctab entries 15

$Id: mris_label2annot.c,v 1.20 2016/01/07 23:28:11 greve Exp $
cwd /study2/emowrap/data/freesurfer/subjects/066/label
cmdline mris_label2annot --s 066 --hemi rh --ctab /apps/x86_64_sci7/freesurfer-6.0.0/average/colortable_BA.txt --l rh.BA1_exvivo.label --l rh.BA2_exvivo.label --l rh.BA3a_exvivo.label --l rh.BA3b_exvivo.label --l rh.BA4a_exvivo.label --l rh.BA4p_exvivo.label --l rh.BA6_exvivo.label --l rh.BA44_exvivo.label --l rh.BA45_exvivo.label --l rh.V1_exvivo.label --l rh.V2_exvivo.label --l rh.MT_exvivo.label --l rh.entorhinal_exvivo.label --l rh.perirhinal_exvivo.label --a BA_exvivo --maxstatwinner --noverbose
sysname  Linux
hostname c139.keck.waisman.wisc.edu
machine  x86_64
user     quinlan

subject 066
hemi    rh
SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
ColorTable /apps/x86_64_sci7/freesurfer-6.0.0/average/colortable_BA.txt
AnnotName  BA_exvivo
nlables 14
LabelThresh 0 0.000000
Loading /study2/emowrap/data/freesurfer/subjects/066/surf/rh.orig
 1 1530880 BA1_exvivo
 2 16749699 BA2_exvivo
 3 16711680 BA3a_exvivo
 4 3368703 BA3b_exvivo
 5 1376196 BA4a_exvivo
 6 13382655 BA4p_exvivo
 7 10036737 BA6_exvivo
 8 2490521 BA44_exvivo
 9 39283 BA45_exvivo
10 3993 V1_exvivo
11 8508928 V2_exvivo
12 10027163 MT_exvivo
13 16422433 perirhinal_exvivo
14 16392598 entorhinal_exvivo
Mapping unhit to unknown
Found 104143 unhit vertices
Writing annot to /study2/emowrap/data/freesurfer/subjects/066/label/rh.BA_exvivo.annot

 mris_label2annot --s 066 --hemi rh --ctab /apps/x86_64_sci7/freesurfer-6.0.0/average/colortable_BA.txt --l rh.BA1_exvivo.thresh.label --l rh.BA2_exvivo.thresh.label --l rh.BA3a_exvivo.thresh.label --l rh.BA3b_exvivo.thresh.label --l rh.BA4a_exvivo.thresh.label --l rh.BA4p_exvivo.thresh.label --l rh.BA6_exvivo.thresh.label --l rh.BA44_exvivo.thresh.label --l rh.BA45_exvivo.thresh.label --l rh.V1_exvivo.thresh.label --l rh.V2_exvivo.thresh.label --l rh.MT_exvivo.thresh.label --l rh.entorhinal_exvivo.thresh.label --l rh.perirhinal_exvivo.thresh.label --a BA_exvivo.thresh --maxstatwinner --noverbose

Reading ctab /apps/x86_64_sci7/freesurfer-6.0.0/average/colortable_BA.txt
Number of ctab entries 15

$Id: mris_label2annot.c,v 1.20 2016/01/07 23:28:11 greve Exp $
cwd /study2/emowrap/data/freesurfer/subjects/066/label
cmdline mris_label2annot --s 066 --hemi rh --ctab /apps/x86_64_sci7/freesurfer-6.0.0/average/colortable_BA.txt --l rh.BA1_exvivo.thresh.label --l rh.BA2_exvivo.thresh.label --l rh.BA3a_exvivo.thresh.label --l rh.BA3b_exvivo.thresh.label --l rh.BA4a_exvivo.thresh.label --l rh.BA4p_exvivo.thresh.label --l rh.BA6_exvivo.thresh.label --l rh.BA44_exvivo.thresh.label --l rh.BA45_exvivo.thresh.label --l rh.V1_exvivo.thresh.label --l rh.V2_exvivo.thresh.label --l rh.MT_exvivo.thresh.label --l rh.entorhinal_exvivo.thresh.label --l rh.perirhinal_exvivo.thresh.label --a BA_exvivo.thresh --maxstatwinner --noverbose
sysname  Linux
hostname c139.keck.waisman.wisc.edu
machine  x86_64
user     quinlan

subject 066
hemi    rh
SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
ColorTable /apps/x86_64_sci7/freesurfer-6.0.0/average/colortable_BA.txt
AnnotName  BA_exvivo.thresh
nlables 14
LabelThresh 0 0.000000
Loading /study2/emowrap/data/freesurfer/subjects/066/surf/rh.orig
 1 1530880 BA1_exvivo
 2 16749699 BA2_exvivo
 3 16711680 BA3a_exvivo
 4 3368703 BA3b_exvivo
 5 1376196 BA4a_exvivo
 6 13382655 BA4p_exvivo
 7 10036737 BA6_exvivo
 8 2490521 BA44_exvivo
 9 39283 BA45_exvivo
10 3993 V1_exvivo
11 8508928 V2_exvivo
12 10027163 MT_exvivo
13 16422433 perirhinal_exvivo
14 16392598 entorhinal_exvivo
Mapping unhit to unknown
Found 125099 unhit vertices
Writing annot to /study2/emowrap/data/freesurfer/subjects/066/label/rh.BA_exvivo.thresh.annot

 mris_anatomical_stats -th3 -mgz -f ../stats/rh.BA_exvivo.stats -b -a ./rh.BA_exvivo.annot -c ./BA_exvivo.ctab 066 rh white

computing statistics for each annotation in ./rh.BA_exvivo.annot.
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/wm.mgz...
reading input surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white...
reading input pial surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.pial...
reading input white surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white...
INFO: using TH3 volume calc
INFO: assuming MGZ format for volumes.
Using TH3 vertex volume calc
Total face volume 245665
Total vertex volume 242468 (mask=0)
reading colortable from annotation file...
colortable with 15 entries read (originally /apps/x86_64_sci7/freesurfer-6.0.0/average/colortable_BA.txt)
Saving annotation colortable ./BA_exvivo.ctab

table columns are:
    number of vertices
    total surface area (mm^2)
    total gray matter volume (mm^3)
    average cortical thickness +- standard deviation (mm)
    integrated rectified mean curvature
    integrated rectified Gaussian curvature
    folding index
    intrinsic curvature index
    structure name

atlas_icv (eTIV) = 1534407 mm^3    (det: 1.269614 )
lhCtxGM: 233824.049 233961.000  diff= -137.0  pctdiff=-0.059
rhCtxGM: 241862.704 241136.000  diff=  726.7  pctdiff= 0.300
lhCtxWM: 200251.579 200297.000  diff=  -45.4  pctdiff=-0.023
rhCtxWM: 224084.947 226662.000  diff=-2577.1  pctdiff=-1.150
SubCortGMVol  52283.000
SupraTentVol  979052.281 (978627.000) diff=425.281 pctdiff=0.043
SupraTentVolNotVent  955192.281 (954767.000) diff=425.281 pctdiff=0.045
BrainSegVol  1109780.000 (1106890.000) diff=2890.000 pctdiff=0.260
BrainSegVolNotVent  1081878.000 (1079790.281) diff=2087.719 pctdiff=0.193
BrainSegVolNotVent  1081878.000
CerebellumVol 127056.000
VentChorVol   23860.000
3rd4th5thCSF   4042.000
CSFVol  1153.000, OptChiasmVol    54.000
MaskVol 1582486.000
 1131    558   1437  1.937 0.578     0.116     0.047       22     2.3  BA1_exvivo
 3321   2031   4131  1.996 0.474     0.103     0.034       38     5.3  BA2_exvivo
 1014    764   1045  1.752 0.370     0.130     0.028        7     1.2  BA3a_exvivo
 1880   1209   2123  1.612 0.496     0.089     0.022       13     1.7  BA3b_exvivo
 1922    932   3124  2.849 0.578     0.092     0.035       16     3.1  BA4a_exvivo
 1475    845   2198  2.638 0.474     0.078     0.019       11     1.1  BA4p_exvivo
 8682   5258  15562  2.523 0.637     0.115     0.039      124    14.4  BA6_exvivo
 4054   2685   6837  2.339 0.472     0.119     0.030       51     4.8  BA44_exvivo
 5565   3646   8718  2.071 0.567     0.131     0.041       78     9.7  BA45_exvivo
 4882   3197   5614  1.676 0.550     0.138     0.038       60     8.0  V1_exvivo
10122   6227  13021  1.898 0.601     0.139     0.038      152    16.0  V2_exvivo
 2271   1536   4071  2.423 0.519     0.117     0.024       24     2.3  MT_exvivo
  643    392   1827  3.172 0.761     0.118     0.035        6     1.0  perirhinal_exvivo
  355    248    838  2.953 0.637     0.111     0.019        3     0.3  entorhinal_exvivo

 mris_anatomical_stats -th3 -mgz -f ../stats/rh.BA_exvivo.thresh.stats -b -a ./rh.BA_exvivo.thresh.annot -c ./BA_exvivo.thresh.ctab 066 rh white

computing statistics for each annotation in ./rh.BA_exvivo.thresh.annot.
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/wm.mgz...
reading input surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white...
reading input pial surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.pial...
reading input white surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white...
INFO: using TH3 volume calc
INFO: assuming MGZ format for volumes.
Using TH3 vertex volume calc
Total face volume 245665
Total vertex volume 242468 (mask=0)
reading colortable from annotation file...
colortable with 15 entries read (originally /apps/x86_64_sci7/freesurfer-6.0.0/average/colortable_BA.txt)
Saving annotation colortable ./BA_exvivo.thresh.ctab

table columns are:
    number of vertices
    total surface area (mm^2)
    total gray matter volume (mm^3)
    average cortical thickness +- standard deviation (mm)
    integrated rectified mean curvature
    integrated rectified Gaussian curvature
    folding index
    intrinsic curvature index
    structure name

atlas_icv (eTIV) = 1534407 mm^3    (det: 1.269614 )
lhCtxGM: 233824.049 233961.000  diff= -137.0  pctdiff=-0.059
rhCtxGM: 241862.704 241136.000  diff=  726.7  pctdiff= 0.300
lhCtxWM: 200251.579 200297.000  diff=  -45.4  pctdiff=-0.023
rhCtxWM: 224084.947 226662.000  diff=-2577.1  pctdiff=-1.150
SubCortGMVol  52283.000
SupraTentVol  979052.281 (978627.000) diff=425.281 pctdiff=0.043
SupraTentVolNotVent  955192.281 (954767.000) diff=425.281 pctdiff=0.045
BrainSegVol  1109780.000 (1106890.000) diff=2890.000 pctdiff=0.260
BrainSegVolNotVent  1081878.000 (1079790.281) diff=2087.719 pctdiff=0.193
BrainSegVolNotVent  1081878.000
CerebellumVol 127056.000
VentChorVol   23860.000
3rd4th5thCSF   4042.000
CSFVol  1153.000, OptChiasmVol    54.000
MaskVol 1582486.000
  852    394    902  1.763 0.547     0.111     0.036       15     1.2  BA1_exvivo
 1838   1121   2280  1.933 0.432     0.080     0.024       14     2.1  BA2_exvivo
  934    695    898  1.768 0.362     0.132     0.029        7     1.2  BA3a_exvivo
 1444    968   1426  1.469 0.349     0.077     0.016        7     0.9  BA3b_exvivo
 1246    548   1814  2.719 0.661     0.112     0.063       32     3.4  BA4a_exvivo
 1249    721   1880  2.685 0.484     0.075     0.018       10     0.9  BA4p_exvivo
 5549   3295   9849  2.517 0.658     0.115     0.036       66     8.3  BA6_exvivo
 1008    666   1953  2.421 0.531     0.127     0.035       16     1.2  BA44_exvivo
 1393    917   2678  2.403 0.447     0.143     0.038       22     2.0  BA45_exvivo
 4664   3063   5252  1.672 0.546     0.139     0.038       58     7.7  V1_exvivo
 5313   3350   6310  1.736 0.546     0.145     0.038       80     8.4  V2_exvivo
  244    178    570  2.546 0.374     0.122     0.025        2     0.3  MT_exvivo
  422    239   1077  3.063 0.771     0.117     0.042        4     0.8  perirhinal_exvivo
  205    166    483  2.972 0.514     0.138     0.023        2     0.2  entorhinal_exvivo

Started at Fri Jan 10 10:44:30 CST 2020
Ended   at Sat Jan 11 00:39:41 CST 2020
#@#%# recon-all-run-time-hours 13.920
recon-all -s 066 finished without error at Sat Jan 11 00:39:41 CST 2020



New invocation of recon-all



Tue Jan 14 13:59:30 CST 2020
/study2/emowrap/data/freesurfer/subjects/066
/apps/x86_64_sci7/freesurfer-latest/bin/recon-all
-subjid 066 -autorecon2-cp -autorecon3
subjid 066
setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-latest
Actual FREESURFER_HOME /apps/freesurfer-6.0.0/x86_64_sci7
build-stamp.txt: freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c
Linux c133.keck.waisman.wisc.edu 3.10.0-1062.9.1.el7.x86_64 #1 SMP Thu Dec 5 14:44:59 CST 2019 x86_64 x86_64 x86_64 GNU/Linux
cputime      unlimited
filesize     unlimited
datasize     3145728 kbytes
stacksize    unlimited
coredumpsize 0 kbytes
memoryuse    3145728 kbytes
vmemoryuse   3145728 kbytes
descriptors  32767
memorylocked 64 kbytes
maxproc      1030757
maxlocks     unlimited
maxsignal    1030757
maxmessage   819200
maxnice      0
maxrtprio    0
maxrttime    unlimited

              total        used        free      shared  buff/cache   available
Mem:      263971172     9459940   192137728      148272    62373504   253562836
Swap:      50331644       11080    50320564

########################################
program versions used
$Id: recon-all,v 1.580.2.16 2017/01/18 14:11:24 zkaufman Exp $
$Id: mri_motion_correct.fsl,v 1.15 2016/02/16 17:17:20 zkaufman Exp $
mri_convert.bin -all-info
ProgramName: mri_convert.bin  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/14-19:59:30-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
FLIRT version 5.5
$Id: talairach_avi,v 1.13 2015/12/23 04:25:17 greve Exp $
mri_convert.bin --version
stable6
ProgramName: tkregister2_cmdl  ProgramArguments: --all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/14-19:59:30-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: tkregister2.c,v 1.132.2.1 2016/08/02 21:17:29 greve Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
Program nu_correct, built from:
Package MNI N3, version 1.12.0, compiled by nicks@terrier (x86_64-unknown-linux-gnu) on 2015-06-19 at 01:25:34
ProgramName: mri_make_uchar  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/14-19:59:30-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_make_uchar.c,v 1.4 2011/03/02 00:04:14 nicks Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_normalize  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/14-19:59:30-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_normalize.c,v 1.88.2.3 2016/12/27 16:47:13 zkaufman Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_watershed  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/14-19:59:30-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_watershed.cpp,v 1.103 2016/06/17 18:00:49 zkaufman Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_gcut  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/14-19:59:30-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_gcut.cpp,v 1.14 2011/03/02 00:04:16 nicks Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_segment  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/14-19:59:30-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_segment.c,v 1.43.2.1 2016/10/27 22:24:52 zkaufman Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_label2label.bin  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/14-19:59:30-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_label2label.c,v 1.48.2.2 2016/12/12 14:15:26 zkaufman Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_em_register  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/14-19:59:30-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_em_register.c,v 1.105.2.1 2016/10/27 22:25:10 zkaufman Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_ca_normalize  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/14-19:59:30-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_ca_normalize.c,v 1.67.2.2 2016/10/27 22:25:09 zkaufman Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_ca_register  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/14-19:59:30-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_ca_register.c,v 1.96.2.3 2016/10/27 22:25:10 zkaufman Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_ca_label  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/14-19:59:30-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_ca_label.c,v 1.113.2.2 2016/10/27 22:25:10 zkaufman Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_pretess  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/14-19:59:30-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_pretess.c,v 1.22 2013/08/30 18:12:25 mreuter Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_fill  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/14-19:59:30-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_fill.c,v 1.119 2011/10/25 14:09:58 fischl Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_tessellate  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/14-19:59:30-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_tessellate.c,v 1.38.2.1 2016/07/26 18:46:38 zkaufman Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_concatenate_lta.bin  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/14-19:59:30-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_concatenate_lta.c,v 1.16 2015/11/21 00:06:20 greve Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_normalize_tp2  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/14-19:59:30-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_normalize_tp2.c,v 1.8 2011/03/02 00:04:23 nicks Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_smooth  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/14-19:59:30-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_smooth.c,v 1.30 2014/01/21 18:48:21 fischl Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_inflate  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/14-19:59:30-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_inflate.c,v 1.45 2016/01/20 23:42:15 greve Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_curvature  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/14-19:59:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_curvature.c,v 1.31 2011/03/02 00:04:30 nicks Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_sphere  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/14-19:59:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_sphere.c,v 1.61 2016/01/20 23:42:15 greve Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_fix_topology  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/14-19:59:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_fix_topology.c,v 1.50.2.1 2016/10/27 22:25:58 zkaufman Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_topo_fixer  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/14-19:59:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_topo_fixer.cpp,v 1.29 2011/03/02 00:04:34 nicks Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_ca_label  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/14-19:59:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_ca_label.c,v 1.37 2014/02/04 17:46:42 fischl Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_euler_number  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/14-19:59:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_euler_number.c,v 1.10 2013/01/14 22:39:14 greve Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_make_surfaces  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/14-19:59:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_make_surfaces.c,v 1.164.2.4 2016/12/13 22:26:32 zkaufman Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_register  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/14-19:59:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_register.c,v 1.63 2016/01/20 23:43:04 greve Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_volmask  ProgramArguments: --all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/14-19:59:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_volmask.cpp,v 1.26.2.2 2016/11/18 20:05:18 zkaufman Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_anatomical_stats  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/14-19:59:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_anatomical_stats.c,v 1.79 2016/03/14 15:15:34 greve Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mrisp_paint  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/14-19:59:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mrisp_paint.c,v 1.12 2016/03/22 14:47:57 fischl Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_curvature_stats  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/14-19:59:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_curvature_stats.c,v 1.65 2015/06/04 20:50:51 nicks Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_calc  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/14-19:59:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_calc.c,v 1.54.2.1 2016/09/27 18:51:28 greve Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
$Id: mri_robust_register.cpp,v 1.77 2016/01/20 23:36:17 greve Exp $

ProgramName: mri_robust_register.bin  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/14-19:59:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_robust_register.cpp,v 1.77 2016/01/20 23:36:17 greve Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
$Id: mri_robust_template.cpp,v 1.54 2016/05/05 21:17:08 mreuter Exp $

ProgramName: mri_robust_template  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/14-19:59:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_robust_template.cpp,v 1.54 2016/05/05 21:17:08 mreuter Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_and  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/14-19:59:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_and.c,v 1.4 2011/03/02 00:04:13 nicks Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_or  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/14-19:59:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_or.c,v 1.5 2013/03/20 15:03:29 lzollei Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_fuse_segmentations  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/14-19:59:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_fuse_segmentations.c,v 1.8 2011/03/02 00:04:15 nicks Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_segstats  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/14-19:59:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_segstats.c,v 1.121 2016/05/31 17:27:11 greve Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_relabel_hypointensities  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/14-19:59:31-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_relabel_hypointensities.c,v 1.13 2015/05/15 18:44:10 nicks Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
#######################################
GCADIR /apps/x86_64_sci7/freesurfer-latest/average
GCA RB_all_2016-05-10.vc700.gca
GCASkull RB_all_withskull_2016-05-10.vc700.gca
AvgCurvTif folding.atlas.acfb40.noaparc.i12.2016-08-02.tif
GCSDIR /apps/x86_64_sci7/freesurfer-latest/average
GCS DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs
#######################################
#--------------------------------------------
#@# Intensity Normalization2 Tue Jan 14 13:59:31 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/mri

 mri_normalize -mprage -aseg aseg.presurf.mgz -mask brainmask.mgz norm.mgz brain.mgz

assuming input volume is MGH (Van der Kouwe) MP-RAGE
using segmentation for initial intensity normalization
using MR volume brainmask.mgz to mask input volume...
reading from norm.mgz...
Reading aseg aseg.presurf.mgz
normalizing image...
processing with aseg
removing outliers in the aseg WM...
1139 control points removed
Building bias image
building Voronoi diagram...
performing soap bubble smoothing, sigma = 0...
Smoothing with sigma 8
Applying bias correction
building Voronoi diagram...
performing soap bubble smoothing, sigma = 8...

Iterating 2 times
---------------------------------
3d normalization pass 1 of 2
white matter peak found at 110
white matter peak found at 109
gm peak at 74 (74), valley at 35 (35)
csf peak at 10, setting threshold to 52
building Voronoi diagram...
performing soap bubble smoothing, sigma = 8...
---------------------------------
3d normalization pass 2 of 2
white matter peak found at 110
white matter peak found at 110
gm peak at 71 (71), valley at 47 (47)
csf peak at 10, setting threshold to 50
building Voronoi diagram...
performing soap bubble smoothing, sigma = 8...
Done iterating ---------------------------------
writing output to brain.mgz
3D bias adjustment took 5 minutes and 48 seconds.
#--------------------------------------------
#@# Mask BFS Tue Jan 14 14:05:24 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/mri

 mri_mask -T 5 brain.mgz brainmask.mgz brain.finalsurfs.mgz

threshold mask volume at 5
DoAbs = 0
Found 1547130 voxels in mask (pct=  9.22)
Writing masked volume to brain.finalsurfs.mgz...done.
#--------------------------------------------
#@# WM Segmentation Tue Jan 14 14:05:27 CST 2020

 mri_binarize --i wm.mgz --min 255 --max 255 --o wm255.mgz --count wm255.txt


$Id: mri_binarize.c,v 1.43 2016/06/09 20:46:21 greve Exp $
cwd /study2/emowrap/data/freesurfer/subjects/066/mri
cmdline mri_binarize.bin --i wm.mgz --min 255 --max 255 --o wm255.mgz --count wm255.txt
sysname  Linux
hostname c133.keck.waisman.wisc.edu
machine  x86_64
user     quinlan

input      wm.mgz
frame      0
nErode3d   0
nErode2d   0
output     wm255.mgz
Binarizing based on threshold
min        255
max        255
binval        1
binvalnot     0
fstart = 0, fend = 0, nframes = 1
Found 0 values in range
Counting number of voxels in first frame
Found 0 voxels in final mask
Count: 0 0.000000 16777216 0.000000
mri_binarize done

 mri_binarize --i wm.mgz --min 1 --max 1 --o wm1.mgz --count wm1.txt


$Id: mri_binarize.c,v 1.43 2016/06/09 20:46:21 greve Exp $
cwd /study2/emowrap/data/freesurfer/subjects/066/mri
cmdline mri_binarize.bin --i wm.mgz --min 1 --max 1 --o wm1.mgz --count wm1.txt
sysname  Linux
hostname c133.keck.waisman.wisc.edu
machine  x86_64
user     quinlan

input      wm.mgz
frame      0
nErode3d   0
nErode2d   0
output     wm1.mgz
Binarizing based on threshold
min        1
max        1
binval        1
binvalnot     0
fstart = 0, fend = 0, nframes = 1
Found 0 values in range
Counting number of voxels in first frame
Found 0 voxels in final mask
Count: 0 0.000000 16777216 0.000000
mri_binarize done

 rm wm1.mgz wm255.mgz


 mri_segment -keep -mprage brain.mgz wm.seg.mgz

preserving editing changes in output volume...
doing initial intensity segmentation...
using local statistics to label ambiguous voxels...
computing class statistics for intensity windows...
WM (105.0): 105.4 +- 5.9 [79.0 --> 125.0]
GM (69.0) : 66.4 +- 11.8 [30.0 --> 95.0]
setting bottom of white matter range to 78.1
setting top of gray matter range to 89.9
doing initial intensity segmentation...
using local statistics to label ambiguous voxels...
using local geometry to label remaining ambiguous voxels...

reclassifying voxels using Gaussian border classifier...

removing voxels with positive offset direction...
smoothing T1 volume with sigma = 0.250
removing 1-dimensional structures...
12837 sparsely connected voxels removed...
thickening thin strands....
20 segments, 4247 filled
4171 bright non-wm voxels segmented.
5846 diagonally connected voxels added...
white matter segmentation took 3.1 minutes
writing output to wm.seg.mgz...
assuming input volume is MGH (Van der Kouwe) MP-RAGE

 mri_edit_wm_with_aseg -keep-in wm.seg.mgz brain.mgz aseg.presurf.mgz wm.asegedit.mgz

preserving editing changes in input volume...
auto filling took 1.05 minutes
reading wm segmentation from wm.seg.mgz...
117 voxels added to wm to prevent paths from MTL structures to cortex
4413 additional wm voxels added
0 additional wm voxels added
SEG EDIT: 59378 voxels turned on, 49085 voxels turned off.
propagating editing to output volume from wm.seg.mgz
115,126,128 old 0   new 0
115,126,128 old 0   new 0
writing edited volume to wm.asegedit.mgz....

 mri_pretess -keep wm.asegedit.mgz wm norm.mgz wm.mgz


Iteration Number : 1
pass   1 (xy+):  46 found -  46 modified     |    TOTAL:  46
pass   2 (xy+):   0 found -  46 modified     |    TOTAL:  46
pass   1 (xy-):  47 found -  47 modified     |    TOTAL:  93
pass   2 (xy-):   0 found -  47 modified     |    TOTAL:  93
pass   1 (yz+):  37 found -  37 modified     |    TOTAL: 130
pass   2 (yz+):   0 found -  37 modified     |    TOTAL: 130
pass   1 (yz-):  40 found -  40 modified     |    TOTAL: 170
pass   2 (yz-):   0 found -  40 modified     |    TOTAL: 170
pass   1 (xz+):  32 found -  32 modified     |    TOTAL: 202
pass   2 (xz+):   0 found -  32 modified     |    TOTAL: 202
pass   1 (xz-):  31 found -  31 modified     |    TOTAL: 233
pass   2 (xz-):   0 found -  31 modified     |    TOTAL: 233
Iteration Number : 1
pass   1 (+++):  37 found -  37 modified     |    TOTAL:  37
pass   2 (+++):   0 found -  37 modified     |    TOTAL:  37
pass   1 (+++):  42 found -  42 modified     |    TOTAL:  79
pass   2 (+++):   0 found -  42 modified     |    TOTAL:  79
pass   1 (+++):  51 found -  51 modified     |    TOTAL: 130
pass   2 (+++):   0 found -  51 modified     |    TOTAL: 130
pass   1 (+++):  59 found -  59 modified     |    TOTAL: 189
pass   2 (+++):   0 found -  59 modified     |    TOTAL: 189
Iteration Number : 1
pass   1 (++): 151 found - 151 modified     |    TOTAL: 151
pass   2 (++):   0 found - 151 modified     |    TOTAL: 151
pass   1 (+-): 180 found - 180 modified     |    TOTAL: 331
pass   2 (+-):   0 found - 180 modified     |    TOTAL: 331
pass   1 (--): 173 found - 173 modified     |    TOTAL: 504
pass   2 (--):   0 found - 173 modified     |    TOTAL: 504
pass   1 (-+): 196 found - 196 modified     |    TOTAL: 700
pass   2 (-+):   0 found - 196 modified     |    TOTAL: 700
Iteration Number : 2
pass   1 (xy+):  15 found -  15 modified     |    TOTAL:  15
pass   2 (xy+):   0 found -  15 modified     |    TOTAL:  15
pass   1 (xy-):  23 found -  23 modified     |    TOTAL:  38
pass   2 (xy-):   0 found -  23 modified     |    TOTAL:  38
pass   1 (yz+):  22 found -  22 modified     |    TOTAL:  60
pass   2 (yz+):   0 found -  22 modified     |    TOTAL:  60
pass   1 (yz-):  18 found -  18 modified     |    TOTAL:  78
pass   2 (yz-):   0 found -  18 modified     |    TOTAL:  78
pass   1 (xz+):  14 found -  14 modified     |    TOTAL:  92
pass   2 (xz+):   0 found -  14 modified     |    TOTAL:  92
pass   1 (xz-):  25 found -  25 modified     |    TOTAL: 117
pass   2 (xz-):   0 found -  25 modified     |    TOTAL: 117
Iteration Number : 2
pass   1 (+++):   1 found -   1 modified     |    TOTAL:   1
pass   2 (+++):   0 found -   1 modified     |    TOTAL:   1
pass   1 (+++):  10 found -  10 modified     |    TOTAL:  11
pass   2 (+++):   0 found -  10 modified     |    TOTAL:  11
pass   1 (+++):   4 found -   4 modified     |    TOTAL:  15
pass   2 (+++):   0 found -   4 modified     |    TOTAL:  15
pass   1 (+++):  10 found -  10 modified     |    TOTAL:  25
pass   2 (+++):   0 found -  10 modified     |    TOTAL:  25
Iteration Number : 2
pass   1 (++):  11 found -  11 modified     |    TOTAL:  11
pass   2 (++):   0 found -  11 modified     |    TOTAL:  11
pass   1 (+-):  12 found -  12 modified     |    TOTAL:  23
pass   2 (+-):   0 found -  12 modified     |    TOTAL:  23
pass   1 (--):   5 found -   5 modified     |    TOTAL:  28
pass   2 (--):   0 found -   5 modified     |    TOTAL:  28
pass   1 (-+):   8 found -   8 modified     |    TOTAL:  36
pass   2 (-+):   0 found -   8 modified     |    TOTAL:  36
Iteration Number : 3
pass   1 (xy+):   5 found -   5 modified     |    TOTAL:   5
pass   2 (xy+):   0 found -   5 modified     |    TOTAL:   5
pass   1 (xy-):   2 found -   2 modified     |    TOTAL:   7
pass   2 (xy-):   0 found -   2 modified     |    TOTAL:   7
pass   1 (yz+):   2 found -   2 modified     |    TOTAL:   9
pass   2 (yz+):   0 found -   2 modified     |    TOTAL:   9
pass   1 (yz-):   2 found -   2 modified     |    TOTAL:  11
pass   2 (yz-):   0 found -   2 modified     |    TOTAL:  11
pass   1 (xz+):   0 found -   0 modified     |    TOTAL:  11
pass   1 (xz-):   2 found -   2 modified     |    TOTAL:  13
pass   2 (xz-):   0 found -   2 modified     |    TOTAL:  13
Iteration Number : 3
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   2 found -   2 modified     |    TOTAL:   2
pass   2 (+++):   0 found -   2 modified     |    TOTAL:   2
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   2
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   2
Iteration Number : 3
pass   1 (++):   1 found -   1 modified     |    TOTAL:   1
pass   2 (++):   0 found -   1 modified     |    TOTAL:   1
pass   1 (+-):   0 found -   0 modified     |    TOTAL:   1
pass   1 (--):   1 found -   1 modified     |    TOTAL:   2
pass   2 (--):   0 found -   1 modified     |    TOTAL:   2
pass   1 (-+):   3 found -   3 modified     |    TOTAL:   5
pass   2 (-+):   0 found -   3 modified     |    TOTAL:   5
Iteration Number : 4
pass   1 (xy+):   0 found -   0 modified     |    TOTAL:   0
pass   1 (xy-):   0 found -   0 modified     |    TOTAL:   0
pass   1 (yz+):   0 found -   0 modified     |    TOTAL:   0
pass   1 (yz-):   0 found -   0 modified     |    TOTAL:   0
pass   1 (xz+):   0 found -   0 modified     |    TOTAL:   0
pass   1 (xz-):   0 found -   0 modified     |    TOTAL:   0
Iteration Number : 4
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
Iteration Number : 4
pass   1 (++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+-):   0 found -   0 modified     |    TOTAL:   0
pass   1 (--):   0 found -   0 modified     |    TOTAL:   0
pass   1 (-+):   0 found -   0 modified     |    TOTAL:   0

Total Number of Modified Voxels = 1320 (out of 560673: 0.235431)
keeping edits
binarizing input wm segmentation...
Ambiguous edge configurations...

Searching for edits to keep ...
  kept 0 WM ON voxels
  kept 0 WM OFF voxels

mri_pretess done

#--------------------------------------------
#@# Fill Tue Jan 14 14:09:57 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/mri

 mri_fill -a ../scripts/ponscc.cut.log -xform transforms/talairach.lta -segmentation aseg.auto_noCCseg.mgz wm.mgz filled.mgz

logging cutting plane coordinates to ../scripts/ponscc.cut.log...
INFO: Using transforms/talairach.lta and its offset for Talairach volume ...
using segmentation aseg.auto_noCCseg.mgz...
reading input volume...done.
searching for cutting planes...voxel to talairach voxel transform
 1.10483   0.11430  -0.01831  -28.09366;
-0.10253   1.09980   0.22423  -31.51505;
 0.00209  -0.17518   0.93346   14.73921;
 0.00000   0.00000   0.00000   1.00000;
voxel to talairach voxel transform
 1.10483   0.11430  -0.01831  -28.09366;
-0.10253   1.09980   0.22423  -31.51505;
 0.00209  -0.17518   0.93346   14.73921;
 0.00000   0.00000   0.00000   1.00000;
reading segmented volume aseg.auto_noCCseg.mgz...
Looking for area (min, max) = (350, 1400)
area[0] = 2705 (min = 350, max = 1400), aspect = 1.33 (min = 0.10, max = 0.75)
need search nearby
using seed (125, 111, 89), TAL = (3.0, -39.0, 17.0)
talairach voxel to voxel transform
 0.89696  -0.08709   0.03851   21.88677;
 0.08093   0.86789  -0.20689   32.67467;
 0.01318   0.16307   1.03237  -9.70692;
 0.00000   0.00000   0.00000   1.00000;
segmentation indicates cc at (125,  111,  89) --> (3.0, -39.0, 17.0)
done.
writing output to filled.mgz...
filling took 1.1 minutes
talairach cc position changed to (3.00, -39.00, 17.00)
Erasing brainstem...done.
seed_search_size = 9, min_neighbors = 5
search rh wm seed point around talairach space:(21.00, -39.00, 17.00) SRC: (111.62, 119.26, 101.69)
search lh wm seed point around talairach space (-15.00, -39.00, 17.00), SRC: (143.91, 122.17, 102.16)
compute mri_fill using aseg
Erasing Brain Stem and Cerebellum ...
Define left and right masks using aseg:
Building Voronoi diagram ...
Using the Voronoi diagram to separate WM into two hemispheres ...
Find the largest connected component for each hemisphere ...
#--------------------------------------------
#@# Tessellate lh Tue Jan 14 14:11:06 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mri_pretess ../mri/filled.mgz 255 ../mri/norm.mgz ../mri/filled-pretess255.mgz


Iteration Number : 1
pass   1 (xy+):   2 found -   2 modified     |    TOTAL:   2
pass   2 (xy+):   0 found -   2 modified     |    TOTAL:   2
pass   1 (xy-):   4 found -   4 modified     |    TOTAL:   6
pass   2 (xy-):   0 found -   4 modified     |    TOTAL:   6
pass   1 (yz+):   1 found -   1 modified     |    TOTAL:   7
pass   2 (yz+):   0 found -   1 modified     |    TOTAL:   7
pass   1 (yz-):   3 found -   3 modified     |    TOTAL:  10
pass   2 (yz-):   0 found -   3 modified     |    TOTAL:  10
pass   1 (xz+):   5 found -   5 modified     |    TOTAL:  15
pass   2 (xz+):   0 found -   5 modified     |    TOTAL:  15
pass   1 (xz-):   1 found -   1 modified     |    TOTAL:  16
pass   2 (xz-):   0 found -   1 modified     |    TOTAL:  16
Iteration Number : 1
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
Iteration Number : 1
pass   1 (++):   2 found -   2 modified     |    TOTAL:   2
pass   2 (++):   0 found -   2 modified     |    TOTAL:   2
pass   1 (+-):   3 found -   3 modified     |    TOTAL:   5
pass   2 (+-):   0 found -   3 modified     |    TOTAL:   5
pass   1 (--):   2 found -   2 modified     |    TOTAL:   7
pass   2 (--):   0 found -   2 modified     |    TOTAL:   7
pass   1 (-+):   0 found -   0 modified     |    TOTAL:   7
Iteration Number : 2
pass   1 (xy+):   0 found -   0 modified     |    TOTAL:   0
pass   1 (xy-):   0 found -   0 modified     |    TOTAL:   0
pass   1 (yz+):   0 found -   0 modified     |    TOTAL:   0
pass   1 (yz-):   0 found -   0 modified     |    TOTAL:   0
pass   1 (xz+):   0 found -   0 modified     |    TOTAL:   0
pass   1 (xz-):   0 found -   0 modified     |    TOTAL:   0
Iteration Number : 2
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
Iteration Number : 2
pass   1 (++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+-):   0 found -   0 modified     |    TOTAL:   0
pass   1 (--):   0 found -   0 modified     |    TOTAL:   0
pass   1 (-+):   0 found -   0 modified     |    TOTAL:   0

Total Number of Modified Voxels = 23 (out of 256253: 0.008976)
Ambiguous edge configurations...

mri_pretess done


 mri_tessellate ../mri/filled-pretess255.mgz 255 ../surf/lh.orig.nofix

$Id: mri_tessellate.c,v 1.38.2.1 2016/07/26 18:46:38 zkaufman Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
slice 40: 588 vertices, 697 faces
slice 50: 7253 vertices, 7553 faces
slice 60: 15555 vertices, 15937 faces
slice 70: 25539 vertices, 25995 faces
slice 80: 36800 vertices, 37267 faces
slice 90: 47895 vertices, 48368 faces
slice 100: 59467 vertices, 59978 faces
slice 110: 71982 vertices, 72500 faces
slice 120: 83499 vertices, 83978 faces
slice 130: 94245 vertices, 94770 faces
slice 140: 106321 vertices, 106913 faces
slice 150: 118683 vertices, 119188 faces
slice 160: 128334 vertices, 128863 faces
slice 170: 136698 vertices, 137182 faces
slice 180: 144400 vertices, 144861 faces
slice 190: 150175 vertices, 150576 faces
slice 200: 154804 vertices, 155163 faces
slice 210: 155604 vertices, 155832 faces
slice 220: 155604 vertices, 155832 faces
slice 230: 155604 vertices, 155832 faces
slice 240: 155604 vertices, 155832 faces
slice 250: 155604 vertices, 155832 faces
using the conformed surface RAS to save vertex points...
writing ../surf/lh.orig.nofix
using vox2ras matrix:
-1.00000   0.00000   0.00000   128.00000;
 0.00000   0.00000   1.00000  -128.00000;
 0.00000  -1.00000   0.00000   128.00000;
 0.00000   0.00000   0.00000   1.00000;

 rm -f ../mri/filled-pretess255.mgz


 mris_extract_main_component ../surf/lh.orig.nofix ../surf/lh.orig.nofix


counting number of connected components...
   155604 voxel in cpt #1: X=-228 [v=155604,e=467496,f=311664] located at (-27.076014, -12.855742, 5.711203)
For the whole surface: X=-228 [v=155604,e=467496,f=311664]
One single component has been found
nothing to do
done

#--------------------------------------------
#@# Tessellate rh Tue Jan 14 14:11:23 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mri_pretess ../mri/filled.mgz 127 ../mri/norm.mgz ../mri/filled-pretess127.mgz


Iteration Number : 1
pass   1 (xy+):   1 found -   1 modified     |    TOTAL:   1
pass   2 (xy+):   0 found -   1 modified     |    TOTAL:   1
pass   1 (xy-):   0 found -   0 modified     |    TOTAL:   1
pass   1 (yz+):   0 found -   0 modified     |    TOTAL:   1
pass   1 (yz-):   0 found -   0 modified     |    TOTAL:   1
pass   1 (xz+):   1 found -   1 modified     |    TOTAL:   2
pass   2 (xz+):   0 found -   1 modified     |    TOTAL:   2
pass   1 (xz-):   0 found -   0 modified     |    TOTAL:   2
Iteration Number : 1
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
Iteration Number : 1
pass   1 (++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+-):   0 found -   0 modified     |    TOTAL:   0
pass   1 (--):   0 found -   0 modified     |    TOTAL:   0
pass   1 (-+):   0 found -   0 modified     |    TOTAL:   0
Iteration Number : 2
pass   1 (xy+):   0 found -   0 modified     |    TOTAL:   0
pass   1 (xy-):   0 found -   0 modified     |    TOTAL:   0
pass   1 (yz+):   0 found -   0 modified     |    TOTAL:   0
pass   1 (yz-):   0 found -   0 modified     |    TOTAL:   0
pass   1 (xz+):   0 found -   0 modified     |    TOTAL:   0
pass   1 (xz-):   0 found -   0 modified     |    TOTAL:   0
Iteration Number : 2
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+++):   0 found -   0 modified     |    TOTAL:   0
Iteration Number : 2
pass   1 (++):   0 found -   0 modified     |    TOTAL:   0
pass   1 (+-):   0 found -   0 modified     |    TOTAL:   0
pass   1 (--):   0 found -   0 modified     |    TOTAL:   0
pass   1 (-+):   0 found -   0 modified     |    TOTAL:   0

Total Number of Modified Voxels = 2 (out of 282054: 0.000709)
Ambiguous edge configurations...

mri_pretess done


 mri_tessellate ../mri/filled-pretess127.mgz 127 ../surf/rh.orig.nofix

$Id: mri_tessellate.c,v 1.38.2.1 2016/07/26 18:46:38 zkaufman Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
slice 40: 88 vertices, 117 faces
slice 50: 4166 vertices, 4410 faces
slice 60: 11633 vertices, 11935 faces
slice 70: 21561 vertices, 22006 faces
slice 80: 32782 vertices, 33208 faces
slice 90: 43466 vertices, 43852 faces
slice 100: 55025 vertices, 55493 faces
slice 110: 67377 vertices, 67907 faces
slice 120: 80009 vertices, 80535 faces
slice 130: 92190 vertices, 92701 faces
slice 140: 104353 vertices, 104903 faces
slice 150: 116116 vertices, 116652 faces
slice 160: 127004 vertices, 127563 faces
slice 170: 135897 vertices, 136366 faces
slice 180: 144175 vertices, 144620 faces
slice 190: 150943 vertices, 151361 faces
slice 200: 156417 vertices, 156798 faces
slice 210: 159269 vertices, 159546 faces
slice 220: 159558 vertices, 159782 faces
slice 230: 159558 vertices, 159782 faces
slice 240: 159558 vertices, 159782 faces
slice 250: 159558 vertices, 159782 faces
using the conformed surface RAS to save vertex points...
writing ../surf/rh.orig.nofix
using vox2ras matrix:
-1.00000   0.00000   0.00000   128.00000;
 0.00000   0.00000   1.00000  -128.00000;
 0.00000  -1.00000   0.00000   128.00000;
 0.00000   0.00000   0.00000   1.00000;

 rm -f ../mri/filled-pretess127.mgz


 mris_extract_main_component ../surf/rh.orig.nofix ../surf/rh.orig.nofix


counting number of connected components...
   159558 voxel in cpt #1: X=-224 [v=159558,e=479346,f=319564] located at (26.241781, -8.160963, 10.504513)
For the whole surface: X=-224 [v=159558,e=479346,f=319564]
One single component has been found
nothing to do
done

#--------------------------------------------
#@# Smooth1 lh Tue Jan 14 14:11:40 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_smooth -nw -seed 1234 ../surf/lh.orig.nofix ../surf/lh.smoothwm.nofix

setting seed for random number generator to 1234
smoothing surface tessellation for 10 iterations...
smoothing complete - recomputing first and second fundamental forms...
#--------------------------------------------
#@# Smooth1 rh Tue Jan 14 14:11:51 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_smooth -nw -seed 1234 ../surf/rh.orig.nofix ../surf/rh.smoothwm.nofix

setting seed for random number generator to 1234
smoothing surface tessellation for 10 iterations...
smoothing complete - recomputing first and second fundamental forms...
#--------------------------------------------
#@# Inflation1 lh Tue Jan 14 14:12:02 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_inflate -no-save-sulc ../surf/lh.smoothwm.nofix ../surf/lh.inflated.nofix

Not saving sulc
Reading ../surf/lh.smoothwm.nofix
avg radius = 48.8 mm, total surface area = 80850 mm^2
writing inflated surface to ../surf/lh.inflated.nofix
inflation took 1.0 minutes

step 000: RMS=0.168 (target=0.015)
step 005: RMS=0.130 (target=0.015)   ep 010: RMS=0.105 (target=0.015)   
st015: RMS=0.094 (target=0.015)   
step : RMS=0.085 (target=0.015)   
step 025MS=0.079 (target=0.015)   
step 030: R0.074 (target=0.015)   
step 035: RMS=71 (target=0.015)   
step 040: RMS=0.0(target=0.015)   
step 045: RMS=0.066 rget=0.015)   
step 050: RMS=0.066 (tat=0.015)   
step 055: RMS=0.066 (targe.015)   
step 060: RMS=0.066 (target=05)   
inflation complete.
Not saving sulc
mris_inflate utimesec    60.220611
mris_inflate stimesec    0.497757
mris_inflate ru_maxrss   199612
mris_inflate ru_ixrss    0
mris_inflate ru_idrss    0
mris_inflate ru_isrss    0
mris_inflate ru_minflt   301587
mris_inflate ru_majflt   0
mris_inflate ru_nswap    0
mris_inflate ru_inblock  0
mris_inflate ru_oublock  10960
mris_inflate ru_msgsnd   0
mris_inflate ru_msgrcv   0
mris_inflate ru_nsignals 0
mris_inflate ru_nvcsw    172
mris_inflate ru_nivcsw   2622
#--------------------------------------------
#@# Inflation1 rh Tue Jan 14 14:13:03 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_inflate -no-save-sulc ../surf/rh.smoothwm.nofix ../surf/rh.inflated.nofix

Not saving sulc
Reading ../surf/rh.smoothwm.nofix
avg radius = 49.1 mm, total surface area = 83002 mm^2
writing inflated surface to ../surf/rh.inflated.nofix
inflation took 1.1 minutes

step 000: RMS=0.167 (target=0.015)
step 005: RMS=0.130 (target=0.015)   ep 010: RMS=0.104 (target=0.015)   
st015: RMS=0.093 (target=0.015)   
step : RMS=0.085 (target=0.015)   
step 025MS=0.079 (target=0.015)   
step 030: R0.074 (target=0.015)   
step 035: RMS=69 (target=0.015)   
step 040: RMS=0.0(target=0.015)   
step 045: RMS=0.063 rget=0.015)   
step 050: RMS=0.061 (tat=0.015)   
step 055: RMS=0.060 (targe.015)   
step 060: RMS=0.060 (target=05)   
inflation complete.
Not saving sulc
mris_inflate utimesec    64.005788
mris_inflate stimesec    0.850678
mris_inflate ru_maxrss   204672
mris_inflate ru_ixrss    0
mris_inflate ru_idrss    0
mris_inflate ru_isrss    0
mris_inflate ru_minflt   409690
mris_inflate ru_majflt   0
mris_inflate ru_nswap    0
mris_inflate ru_inblock  0
mris_inflate ru_oublock  11240
mris_inflate ru_msgsnd   0
mris_inflate ru_msgrcv   0
mris_inflate ru_nsignals 0
mris_inflate ru_nvcsw    195
mris_inflate ru_nivcsw   1866
#--------------------------------------------
#@# QSphere lh Tue Jan 14 14:14:08 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_sphere -q -seed 1234 ../surf/lh.inflated.nofix ../surf/lh.qsphere.nofix

doing quick spherical unfolding.
setting seed for random number genererator to 1234
$Id: mris_sphere.c,v 1.61 2016/01/20 23:42:15 greve Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading original vertex positions...
unfolding cortex into spherical form...
surface projected - minimizing metric distortion...
vertex spacing 0.90 +- 0.61 (0.00-->7.05) (max @ vno 67901 --> 69121)
face area 0.02 +- 0.03 (-0.10-->0.81)

== Number of threads available to mris_sphere for OpenMP = 1 ==
scaling brain by 0.292...
inflating to sphere (rms error < 2.00)
000: dt: 0.0000, rms radial error=176.591, avgs=0
005/300: dt: 0.9000, rms radial error=176.339, avgs=0
010/300: dt: 0.9000, rms radial error=175.797, avgs=0
015/300: dt: 0.9000, rms radial error=175.084, avgs=0
020/300: dt: 0.9000, rms radial error=174.264, avgs=0
025/300: dt: 0.9000, rms radial error=173.380, avgs=0
030/300: dt: 0.9000, rms radial error=172.464, avgs=0
035/300: dt: 0.9000, rms radial error=171.532, avgs=0
040/300: dt: 0.9000, rms radial error=170.591, avgs=0
045/300: dt: 0.9000, rms radial error=169.648, avgs=0
050/300: dt: 0.9000, rms radial error=168.706, avgs=0
055/300: dt: 0.9000, rms radial error=167.765, avgs=0
060/300: dt: 0.9000, rms radial error=166.829, avgs=0
065/300: dt: 0.9000, rms radial error=165.896, avgs=0
070/300: dt: 0.9000, rms radial error=164.968, avgs=0
075/300: dt: 0.9000, rms radial error=164.045, avgs=0
080/300: dt: 0.9000, rms radial error=163.128, avgs=0
085/300: dt: 0.9000, rms radial error=162.215, avgs=0
090/300: dt: 0.9000, rms radial error=161.307, avgs=0
095/300: dt: 0.9000, rms radial error=160.404, avgs=0
100/300: dt: 0.9000, rms radial error=159.506, avgs=0
105/300: dt: 0.9000, rms radial error=158.612, avgs=0
110/300: dt: 0.9000, rms radial error=157.722, avgs=0
115/300: dt: 0.9000, rms radial error=156.837, avgs=0
120/300: dt: 0.9000, rms radial error=155.957, avgs=0
125/300: dt: 0.9000, rms radial error=155.081, avgs=0
130/300: dt: 0.9000, rms radial error=154.209, avgs=0
135/300: dt: 0.9000, rms radial error=153.343, avgs=0
140/300: dt: 0.9000, rms radial error=152.481, avgs=0
145/300: dt: 0.9000, rms radial error=151.624, avgs=0
150/300: dt: 0.9000, rms radial error=150.771, avgs=0
155/300: dt: 0.9000, rms radial error=149.923, avgs=0
160/300: dt: 0.9000, rms radial error=149.080, avgs=0
165/300: dt: 0.9000, rms radial error=148.241, avgs=0
170/300: dt: 0.9000, rms radial error=147.407, avgs=0
175/300: dt: 0.9000, rms radial error=146.577, avgs=0
180/300: dt: 0.9000, rms radial error=145.751, avgs=0
185/300: dt: 0.9000, rms radial error=144.930, avgs=0
190/300: dt: 0.9000, rms radial error=144.114, avgs=0
195/300: dt: 0.9000, rms radial error=143.302, avgs=0
200/300: dt: 0.9000, rms radial error=142.495, avgs=0
205/300: dt: 0.9000, rms radial error=141.692, avgs=0
210/300: dt: 0.9000, rms radial error=140.893, avgs=0
215/300: dt: 0.9000, rms radial error=140.099, avgs=0
220/300: dt: 0.9000, rms radial error=139.309, avgs=0
225/300: dt: 0.9000, rms radial error=138.523, avgs=0
230/300: dt: 0.9000, rms radial error=137.742, avgs=0
235/300: dt: 0.9000, rms radial error=136.965, avgs=0
240/300: dt: 0.9000, rms radial error=136.193, avgs=0
245/300: dt: 0.9000, rms radial error=135.424, avgs=0
250/300: dt: 0.9000, rms radial error=134.660, avgs=0
255/300: dt: 0.9000, rms radial error=133.901, avgs=0
260/300: dt: 0.9000, rms radial error=133.145, avgs=0
265/300: dt: 0.9000, rms radial error=132.394, avgs=0
270/300: dt: 0.9000, rms radial error=131.647, avgs=0
275/300: dt: 0.9000, rms radial error=130.903, avgs=0
280/300: dt: 0.9000, rms radial error=130.164, avgs=0
285/300: dt: 0.9000, rms radial error=129.429, avgs=0
290/300: dt: 0.9000, rms radial error=128.699, avgs=0
295/300: dt: 0.9000, rms radial error=127.972, avgs=0
300/300: dt: 0.9000, rms radial error=127.249, avgs=0

spherical inflation complete.
epoch 1 (K=10.0), pass 1, starting sse = 18720.25
taking momentum steps...
taking momentum steps...
taking momentum steps...
pass 1 complete, delta sse/iter = 0.00/10 = 0.00010
epoch 2 (K=40.0), pass 1, starting sse = 3395.82
taking momentum steps...
taking momentum steps...
taking momentum steps...
pass 1 complete, delta sse/iter = 0.00/10 = 0.00008
epoch 3 (K=160.0), pass 1, starting sse = 451.98
taking momentum steps...
taking momentum steps...
taking momentum steps...
pass 1 complete, delta sse/iter = 0.04/10 = 0.00360
epoch 4 (K=640.0), pass 1, starting sse = 59.39
taking momentum steps...
taking momentum steps...
taking momentum steps...
pass 1 complete, delta sse/iter = 0.08/11 = 0.00764
final distance error %31.66
writing spherical brain to ../surf/lh.qsphere.nofix
spherical transformation took 0.09 hours
mris_sphere utimesec    336.685085
mris_sphere stimesec    1.456364
mris_sphere ru_maxrss   199800
mris_sphere ru_ixrss    0
mris_sphere ru_idrss    0
mris_sphere ru_isrss    0
mris_sphere ru_minflt   832759
mris_sphere ru_majflt   0
mris_sphere ru_nswap    0
mris_sphere ru_inblock  0
mris_sphere ru_oublock  10960
mris_sphere ru_msgsnd   0
mris_sphere ru_msgrcv   0
mris_sphere ru_nsignals 0
mris_sphere ru_nvcsw    32
mris_sphere ru_nivcsw   11844
FSRUNTIME@ mris_sphere  0.0941 hours 1 threads
#--------------------------------------------
#@# QSphere rh Tue Jan 14 14:19:47 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_sphere -q -seed 1234 ../surf/rh.inflated.nofix ../surf/rh.qsphere.nofix

doing quick spherical unfolding.
setting seed for random number genererator to 1234
$Id: mris_sphere.c,v 1.61 2016/01/20 23:42:15 greve Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading original vertex positions...
unfolding cortex into spherical form...
surface projected - minimizing metric distortion...
vertex spacing 0.90 +- 0.57 (0.00-->6.12) (max @ vno 60622 --> 61881)
face area 0.02 +- 0.03 (-0.25-->0.51)

== Number of threads available to mris_sphere for OpenMP = 1 ==
scaling brain by 0.280...
inflating to sphere (rms error < 2.00)
000: dt: 0.0000, rms radial error=177.166, avgs=0
005/300: dt: 0.9000, rms radial error=176.907, avgs=0
010/300: dt: 0.9000, rms radial error=176.351, avgs=0
015/300: dt: 0.9000, rms radial error=175.619, avgs=0
020/300: dt: 0.9000, rms radial error=174.785, avgs=0
025/300: dt: 0.9000, rms radial error=173.891, avgs=0
030/300: dt: 0.9000, rms radial error=172.964, avgs=0
035/300: dt: 0.9000, rms radial error=172.020, avgs=0
040/300: dt: 0.9000, rms radial error=171.068, avgs=0
045/300: dt: 0.9000, rms radial error=170.115, avgs=0
050/300: dt: 0.9000, rms radial error=169.167, avgs=0
055/300: dt: 0.9000, rms radial error=168.222, avgs=0
060/300: dt: 0.9000, rms radial error=167.280, avgs=0
065/300: dt: 0.9000, rms radial error=166.342, avgs=0
070/300: dt: 0.9000, rms radial error=165.409, avgs=0
075/300: dt: 0.9000, rms radial error=164.480, avgs=0
080/300: dt: 0.9000, rms radial error=163.555, avgs=0
085/300: dt: 0.9000, rms radial error=162.635, avgs=0
090/300: dt: 0.9000, rms radial error=161.721, avgs=0
095/300: dt: 0.9000, rms radial error=160.811, avgs=0
100/300: dt: 0.9000, rms radial error=159.906, avgs=0
105/300: dt: 0.9000, rms radial error=159.007, avgs=0
110/300: dt: 0.9000, rms radial error=158.112, avgs=0
115/300: dt: 0.9000, rms radial error=157.222, avgs=0
120/300: dt: 0.9000, rms radial error=156.336, avgs=0
125/300: dt: 0.9000, rms radial error=155.456, avgs=0
130/300: dt: 0.9000, rms radial error=154.580, avgs=0
135/300: dt: 0.9000, rms radial error=153.710, avgs=0
140/300: dt: 0.9000, rms radial error=152.844, avgs=0
145/300: dt: 0.9000, rms radial error=151.984, avgs=0
150/300: dt: 0.9000, rms radial error=151.129, avgs=0
155/300: dt: 0.9000, rms radial error=150.279, avgs=0
160/300: dt: 0.9000, rms radial error=149.433, avgs=0
165/300: dt: 0.9000, rms radial error=148.592, avgs=0
170/300: dt: 0.9000, rms radial error=147.755, avgs=0
175/300: dt: 0.9000, rms radial error=146.923, avgs=0
180/300: dt: 0.9000, rms radial error=146.096, avgs=0
185/300: dt: 0.9000, rms radial error=145.273, avgs=0
190/300: dt: 0.9000, rms radial error=144.455, avgs=0
195/300: dt: 0.9000, rms radial error=143.641, avgs=0
200/300: dt: 0.9000, rms radial error=142.832, avgs=0
205/300: dt: 0.9000, rms radial error=142.028, avgs=0
210/300: dt: 0.9000, rms radial error=141.227, avgs=0
215/300: dt: 0.9000, rms radial error=140.432, avgs=0
220/300: dt: 0.9000, rms radial error=139.640, avgs=0
225/300: dt: 0.9000, rms radial error=138.853, avgs=0
230/300: dt: 0.9000, rms radial error=138.070, avgs=0
235/300: dt: 0.9000, rms radial error=137.292, avgs=0
240/300: dt: 0.9000, rms radial error=136.518, avgs=0
245/300: dt: 0.9000, rms radial error=135.748, avgs=0
250/300: dt: 0.9000, rms radial error=134.982, avgs=0
255/300: dt: 0.9000, rms radial error=134.221, avgs=0
260/300: dt: 0.9000, rms radial error=133.464, avgs=0
265/300: dt: 0.9000, rms radial error=132.711, avgs=0
270/300: dt: 0.9000, rms radial error=131.962, avgs=0
275/300: dt: 0.9000, rms radial error=131.217, avgs=0
280/300: dt: 0.9000, rms radial error=130.477, avgs=0
285/300: dt: 0.9000, rms radial error=129.741, avgs=0
290/300: dt: 0.9000, rms radial error=129.009, avgs=0
295/300: dt: 0.9000, rms radial error=128.281, avgs=0
300/300: dt: 0.9000, rms radial error=127.557, avgs=0

spherical inflation complete.
epoch 1 (K=10.0), pass 1, starting sse = 19331.41
taking momentum steps...
taking momentum steps...
taking momentum steps...
pass 1 complete, delta sse/iter = 0.00/10 = 0.00012
epoch 2 (K=40.0), pass 1, starting sse = 3491.99
taking momentum steps...
taking momentum steps...
taking momentum steps...
pass 1 complete, delta sse/iter = 0.00/10 = 0.00002
epoch 3 (K=160.0), pass 1, starting sse = 439.70
taking momentum steps...
taking momentum steps...
taking momentum steps...
pass 1 complete, delta sse/iter = 0.06/11 = 0.00582
epoch 4 (K=640.0), pass 1, starting sse = 42.03
taking momentum steps...
taking momentum steps...
taking momentum steps...
pass 1 complete, delta sse/iter = 0.11/14 = 0.00820
final distance error %28.42
writing spherical brain to ../surf/rh.qsphere.nofix
spherical transformation took 0.10 hours
mris_sphere utimesec    363.549097
mris_sphere stimesec    2.241470
mris_sphere ru_maxrss   204864
mris_sphere ru_ixrss    0
mris_sphere ru_idrss    0
mris_sphere ru_isrss    0
mris_sphere ru_minflt   1312980
mris_sphere ru_majflt   0
mris_sphere ru_nswap    0
mris_sphere ru_inblock  0
mris_sphere ru_oublock  11240
mris_sphere ru_msgsnd   0
mris_sphere ru_msgrcv   0
mris_sphere ru_nsignals 0
mris_sphere ru_nvcsw    29
mris_sphere ru_nivcsw   8093
FSRUNTIME@ mris_sphere  0.1017 hours 1 threads
#--------------------------------------------
#@# Fix Topology Copy lh Tue Jan 14 14:25:53 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 cp ../surf/lh.orig.nofix ../surf/lh.orig


 cp ../surf/lh.inflated.nofix ../surf/lh.inflated

#--------------------------------------------
#@# Fix Topology Copy rh Tue Jan 14 14:25:53 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 cp ../surf/rh.orig.nofix ../surf/rh.orig


 cp ../surf/rh.inflated.nofix ../surf/rh.inflated

#@# Fix Topology lh Tue Jan 14 14:25:53 CST 2020

 mris_fix_topology -rusage /study2/emowrap/data/freesurfer/subjects/066/touch/rusage.mris_fix_topology.lh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 066 lh

reading spherical homeomorphism from 'qsphere.nofix'
using genetic algorithm with optimized parameters
setting seed for random number genererator to 1234

*************************************************************
Topology Correction Parameters
retessellation mode:           genetic search
number of patches/generation : 10
number of generations :        10
surface mri loglikelihood coefficient :         1.0
volume mri loglikelihood coefficient :          10.0
normal dot loglikelihood coefficient :          1.0
quadratic curvature loglikelihood coefficient : 1.0
volume resolution :                             2
eliminate vertices during search :              1
initial patch selection :                       1
select all defect vertices :                    0
ordering dependant retessellation:              0
use precomputed edge table :                    0
smooth retessellated patch :                    2
match retessellated patch :                     1
verbose mode :                                  0

*************************************************************
INFO: assuming .mgz format
$Id: mris_fix_topology.c,v 1.50.2.1 2016/10/27 22:25:58 zkaufman Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
before topology correction, eno=-228 (nv=155604, nf=311664, ne=467496, g=115)
using quasi-homeomorphic spherical map to tessellate cortical surface...

Correction of the Topology
Finding true center and radius of Spherical Surface...done
Surface centered at (0,0,0) with radius 100.0 in 13 iterations
marking ambiguous vertices...
26087 ambiguous faces found in tessellation
segmenting defects...
120 defects found, arbitrating ambiguous regions...
analyzing neighboring defects...
      -merging segment 5 into 0
      -merging segment 30 into 26
      -merging segment 40 into 39
      -merging segment 69 into 68
      -merging segment 75 into 72
      -merging segment 82 into 80
      -merging segment 109 into 103
113 defects to be corrected
0 vertices coincident
reading input surface /study2/emowrap/data/freesurfer/subjects/066/surf/lh.qsphere.nofix...
reading brain volume from brain...
reading wm segmentation from wm...
Computing Initial Surface Statistics
      -face       loglikelihood: -9.5970  (-4.7985)
      -vertex     loglikelihood: -6.7816  (-3.3908)
      -normal dot loglikelihood: -3.5237  (-3.5237)
      -quad curv  loglikelihood: -6.1580  (-3.0790)
      Total Loglikelihood : -26.0602

CORRECTING DEFECT 0 (vertices=2505, convex hull=647, v0=16)
XL defect detected...
After retessellation of defect 0 (v0=16), euler #=-110 (141489,421551,279952) : difference with theory (-110) = 0

CORRECTING DEFECT 1 (vertices=283, convex hull=205, v0=739)
After retessellation of defect 1 (v0=739), euler #=-110 (141561,421870,280199) : difference with theory (-109) = 1

CORRECTING DEFECT 2 (vertices=6, convex hull=11, v0=808)
After retessellation of defect 2 (v0=808), euler #=-109 (141562,421876,280205) : difference with theory (-108) = 1

CORRECTING DEFECT 3 (vertices=746, convex hull=268, v0=5163)
After retessellation of defect 3 (v0=5163), euler #=-108 (141653,422292,280531) : difference with theory (-107) = 1

CORRECTING DEFECT 4 (vertices=23, convex hull=57, v0=5302)
After retessellation of defect 4 (v0=5302), euler #=-107 (141663,422341,280571) : difference with theory (-106) = 1

CORRECTING DEFECT 5 (vertices=43, convex hull=59, v0=6305)
After retessellation of defect 5 (v0=6305), euler #=-106 (141674,422402,280622) : difference with theory (-105) = 1

CORRECTING DEFECT 6 (vertices=12, convex hull=31, v0=8924)
After retessellation of defect 6 (v0=8924), euler #=-105 (141676,422418,280637) : difference with theory (-104) = 1

CORRECTING DEFECT 7 (vertices=59, convex hull=78, v0=14090)
After retessellation of defect 7 (v0=14090), euler #=-104 (141704,422535,280727) : difference with theory (-103) = 1

CORRECTING DEFECT 8 (vertices=168, convex hull=36, v0=17405)
After retessellation of defect 8 (v0=17405), euler #=-103 (141709,422560,280748) : difference with theory (-102) = 1

CORRECTING DEFECT 9 (vertices=44, convex hull=53, v0=20153)
After retessellation of defect 9 (v0=20153), euler #=-102 (141720,422613,280791) : difference with theory (-101) = 1

CORRECTING DEFECT 10 (vertices=33, convex hull=32, v0=25235)
After retessellation of defect 10 (v0=25235), euler #=-101 (141724,422633,280808) : difference with theory (-100) = 1

CORRECTING DEFECT 11 (vertices=34, convex hull=29, v0=25366)
After retessellation of defect 11 (v0=25366), euler #=-100 (141732,422667,280835) : difference with theory (-99) = 1

CORRECTING DEFECT 12 (vertices=59, convex hull=93, v0=28648)
After retessellation of defect 12 (v0=28648), euler #=-99 (141766,422810,280945) : difference with theory (-98) = 1

CORRECTING DEFECT 13 (vertices=7, convex hull=31, v0=29492)
After retessellation of defect 13 (v0=29492), euler #=-98 (141769,422827,280960) : difference with theory (-97) = 1

CORRECTING DEFECT 14 (vertices=76, convex hull=73, v0=30841)
After retessellation of defect 14 (v0=30841), euler #=-97 (141784,422909,281028) : difference with theory (-96) = 1

CORRECTING DEFECT 15 (vertices=119, convex hull=80, v0=32743)
After retessellation of defect 15 (v0=32743), euler #=-96 (141795,422972,281081) : difference with theory (-95) = 1

CORRECTING DEFECT 16 (vertices=41, convex hull=52, v0=33180)
After retessellation of defect 16 (v0=33180), euler #=-95 (141807,423027,281125) : difference with theory (-94) = 1

CORRECTING DEFECT 17 (vertices=29, convex hull=25, v0=38478)
After retessellation of defect 17 (v0=38478), euler #=-94 (141808,423036,281134) : difference with theory (-93) = 1

CORRECTING DEFECT 18 (vertices=23, convex hull=25, v0=41312)
After retessellation of defect 18 (v0=41312), euler #=-93 (141811,423052,281148) : difference with theory (-92) = 1

CORRECTING DEFECT 19 (vertices=119, convex hull=64, v0=45168)
After retessellation of defect 19 (v0=45168), euler #=-92 (141826,423123,281205) : difference with theory (-91) = 1

CORRECTING DEFECT 20 (vertices=12, convex hull=32, v0=52315)
After retessellation of defect 20 (v0=52315), euler #=-91 (141829,423142,281222) : difference with theory (-90) = 1

CORRECTING DEFECT 21 (vertices=133, convex hull=76, v0=55155)
After retessellation of defect 21 (v0=55155), euler #=-90 (141852,423242,281300) : difference with theory (-89) = 1

CORRECTING DEFECT 22 (vertices=6, convex hull=16, v0=56170)
After retessellation of defect 22 (v0=56170), euler #=-89 (141853,423250,281308) : difference with theory (-88) = 1

CORRECTING DEFECT 23 (vertices=25, convex hull=40, v0=56549)
After retessellation of defect 23 (v0=56549), euler #=-88 (141856,423273,281329) : difference with theory (-87) = 1

CORRECTING DEFECT 24 (vertices=57, convex hull=39, v0=56793)
After retessellation of defect 24 (v0=56793), euler #=-87 (141866,423316,281363) : difference with theory (-86) = 1

CORRECTING DEFECT 25 (vertices=90, convex hull=41, v0=57940)
After retessellation of defect 25 (v0=57940), euler #=-85 (141875,423360,281400) : difference with theory (-85) = 0

CORRECTING DEFECT 26 (vertices=22, convex hull=51, v0=58400)
After retessellation of defect 26 (v0=58400), euler #=-84 (141885,423406,281437) : difference with theory (-84) = 0

CORRECTING DEFECT 27 (vertices=125, convex hull=91, v0=58510)
After retessellation of defect 27 (v0=58510), euler #=-83 (141896,423477,281498) : difference with theory (-83) = 0

CORRECTING DEFECT 28 (vertices=14, convex hull=18, v0=58964)
After retessellation of defect 28 (v0=58964), euler #=-82 (141898,423490,281510) : difference with theory (-82) = 0

CORRECTING DEFECT 29 (vertices=20, convex hull=30, v0=60739)
After retessellation of defect 29 (v0=60739), euler #=-81 (141899,423503,281523) : difference with theory (-81) = 0

CORRECTING DEFECT 30 (vertices=64, convex hull=41, v0=64072)
After retessellation of defect 30 (v0=64072), euler #=-80 (141918,423575,281577) : difference with theory (-80) = 0

CORRECTING DEFECT 31 (vertices=22, convex hull=38, v0=65109)
After retessellation of defect 31 (v0=65109), euler #=-79 (141922,423599,281598) : difference with theory (-79) = 0

CORRECTING DEFECT 32 (vertices=112, convex hull=73, v0=65893)
After retessellation of defect 32 (v0=65893), euler #=-78 (141940,423682,281664) : difference with theory (-78) = 0

CORRECTING DEFECT 33 (vertices=33, convex hull=55, v0=67176)
After retessellation of defect 33 (v0=67176), euler #=-77 (141961,423769,281731) : difference with theory (-77) = 0

CORRECTING DEFECT 34 (vertices=70, convex hull=47, v0=69549)
After retessellation of defect 34 (v0=69549), euler #=-76 (141973,423824,281775) : difference with theory (-76) = 0

CORRECTING DEFECT 35 (vertices=56, convex hull=33, v0=69830)
After retessellation of defect 35 (v0=69830), euler #=-75 (141977,423848,281796) : difference with theory (-75) = 0

CORRECTING DEFECT 36 (vertices=11, convex hull=22, v0=70291)
After retessellation of defect 36 (v0=70291), euler #=-74 (141983,423871,281814) : difference with theory (-74) = 0

CORRECTING DEFECT 37 (vertices=78, convex hull=109, v0=71845)
After retessellation of defect 37 (v0=71845), euler #=-72 (142024,424042,281946) : difference with theory (-73) = -1

CORRECTING DEFECT 38 (vertices=19, convex hull=17, v0=74494)
After retessellation of defect 38 (v0=74494), euler #=-71 (142024,424045,281950) : difference with theory (-72) = -1

CORRECTING DEFECT 39 (vertices=7, convex hull=29, v0=79005)
After retessellation of defect 39 (v0=79005), euler #=-70 (142025,424057,281962) : difference with theory (-71) = -1

CORRECTING DEFECT 40 (vertices=25, convex hull=60, v0=79135)
After retessellation of defect 40 (v0=79135), euler #=-69 (142037,424117,282011) : difference with theory (-70) = -1

CORRECTING DEFECT 41 (vertices=11, convex hull=24, v0=79413)
After retessellation of defect 41 (v0=79413), euler #=-68 (142040,424131,282023) : difference with theory (-69) = -1

CORRECTING DEFECT 42 (vertices=25, convex hull=62, v0=81449)
After retessellation of defect 42 (v0=81449), euler #=-67 (142050,424183,282066) : difference with theory (-68) = -1

CORRECTING DEFECT 43 (vertices=24, convex hull=52, v0=83466)
After retessellation of defect 43 (v0=83466), euler #=-66 (142062,424237,282109) : difference with theory (-67) = -1

CORRECTING DEFECT 44 (vertices=7, convex hull=35, v0=84006)
After retessellation of defect 44 (v0=84006), euler #=-65 (142066,424258,282127) : difference with theory (-66) = -1

CORRECTING DEFECT 45 (vertices=18, convex hull=53, v0=85507)
After retessellation of defect 45 (v0=85507), euler #=-64 (142080,424318,282174) : difference with theory (-65) = -1

CORRECTING DEFECT 46 (vertices=534, convex hull=291, v0=86411)
After retessellation of defect 46 (v0=86411), euler #=-63 (142168,424725,282494) : difference with theory (-64) = -1

CORRECTING DEFECT 47 (vertices=31, convex hull=80, v0=86859)
After retessellation of defect 47 (v0=86859), euler #=-62 (142187,424814,282565) : difference with theory (-63) = -1

CORRECTING DEFECT 48 (vertices=50, convex hull=51, v0=88477)
After retessellation of defect 48 (v0=88477), euler #=-61 (142201,424875,282613) : difference with theory (-62) = -1

CORRECTING DEFECT 49 (vertices=24, convex hull=25, v0=88742)
After retessellation of defect 49 (v0=88742), euler #=-60 (142204,424890,282626) : difference with theory (-61) = -1

CORRECTING DEFECT 50 (vertices=26, convex hull=71, v0=91155)
After retessellation of defect 50 (v0=91155), euler #=-59 (142216,424954,282679) : difference with theory (-60) = -1

CORRECTING DEFECT 51 (vertices=62, convex hull=93, v0=92586)
After retessellation of defect 51 (v0=92586), euler #=-58 (142233,425045,282754) : difference with theory (-59) = -1

CORRECTING DEFECT 52 (vertices=80, convex hull=99, v0=94361)
After retessellation of defect 52 (v0=94361), euler #=-59 (142242,425134,282833) : difference with theory (-58) = 1

CORRECTING DEFECT 53 (vertices=10, convex hull=17, v0=94526)
After retessellation of defect 53 (v0=94526), euler #=-58 (142243,425143,282842) : difference with theory (-57) = 1

CORRECTING DEFECT 54 (vertices=23, convex hull=37, v0=95008)
After retessellation of defect 54 (v0=95008), euler #=-57 (142252,425182,282873) : difference with theory (-56) = 1

CORRECTING DEFECT 55 (vertices=6, convex hull=17, v0=96594)
After retessellation of defect 55 (v0=96594), euler #=-56 (142253,425188,282879) : difference with theory (-55) = 1

CORRECTING DEFECT 56 (vertices=4988, convex hull=484, v0=97088)
XL defect detected...
After retessellation of defect 56 (v0=97088), euler #=-55 (144160,431159,286944) : difference with theory (-54) = 1

CORRECTING DEFECT 57 (vertices=49, convex hull=27, v0=97414)
After retessellation of defect 57 (v0=97414), euler #=-54 (144164,431176,286958) : difference with theory (-53) = 1

CORRECTING DEFECT 58 (vertices=21, convex hull=19, v0=98853)
After retessellation of defect 58 (v0=98853), euler #=-53 (144164,431180,286963) : difference with theory (-52) = 1

CORRECTING DEFECT 59 (vertices=41, convex hull=65, v0=99102)
After retessellation of defect 59 (v0=99102), euler #=-52 (144175,431242,287015) : difference with theory (-51) = 1

CORRECTING DEFECT 60 (vertices=15, convex hull=28, v0=99710)
After retessellation of defect 60 (v0=99710), euler #=-51 (144178,431258,287029) : difference with theory (-50) = 1

CORRECTING DEFECT 61 (vertices=49, convex hull=31, v0=102262)
After retessellation of defect 61 (v0=102262), euler #=-50 (144183,431283,287050) : difference with theory (-49) = 1

CORRECTING DEFECT 62 (vertices=138, convex hull=92, v0=103372)
After retessellation of defect 62 (v0=103372), euler #=-50 (144219,431427,287158) : difference with theory (-48) = 2

CORRECTING DEFECT 63 (vertices=26, convex hull=34, v0=103996)
After retessellation of defect 63 (v0=103996), euler #=-49 (144226,431460,287185) : difference with theory (-47) = 2

CORRECTING DEFECT 64 (vertices=33, convex hull=33, v0=105777)
After retessellation of defect 64 (v0=105777), euler #=-48 (144231,431484,287205) : difference with theory (-46) = 2

CORRECTING DEFECT 65 (vertices=676, convex hull=364, v0=106251)
After retessellation of defect 65 (v0=106251), euler #=-47 (144340,432009,287622) : difference with theory (-45) = 2

CORRECTING DEFECT 66 (vertices=13, convex hull=38, v0=107592)
After retessellation of defect 66 (v0=107592), euler #=-46 (144342,432028,287640) : difference with theory (-44) = 2

CORRECTING DEFECT 67 (vertices=19, convex hull=39, v0=107901)
After retessellation of defect 67 (v0=107901), euler #=-45 (144352,432073,287676) : difference with theory (-43) = 2

CORRECTING DEFECT 68 (vertices=39, convex hull=68, v0=108480)
After retessellation of defect 68 (v0=108480), euler #=-43 (144360,432128,287725) : difference with theory (-42) = 1

CORRECTING DEFECT 69 (vertices=26, convex hull=29, v0=108682)
After retessellation of defect 69 (v0=108682), euler #=-42 (144366,432157,287749) : difference with theory (-41) = 1

CORRECTING DEFECT 70 (vertices=8, convex hull=14, v0=109471)
After retessellation of defect 70 (v0=109471), euler #=-41 (144367,432165,287757) : difference with theory (-40) = 1

CORRECTING DEFECT 71 (vertices=24, convex hull=28, v0=110002)
After retessellation of defect 71 (v0=110002), euler #=-40 (144370,432183,287773) : difference with theory (-39) = 1

CORRECTING DEFECT 72 (vertices=38, convex hull=40, v0=110108)
After retessellation of defect 72 (v0=110108), euler #=-39 (144388,432253,287826) : difference with theory (-38) = 1

CORRECTING DEFECT 73 (vertices=38, convex hull=76, v0=111265)
After retessellation of defect 73 (v0=111265), euler #=-38 (144414,432362,287910) : difference with theory (-37) = 1

CORRECTING DEFECT 74 (vertices=9, convex hull=22, v0=111727)
After retessellation of defect 74 (v0=111727), euler #=-37 (144415,432370,287918) : difference with theory (-36) = 1

CORRECTING DEFECT 75 (vertices=63, convex hull=68, v0=111977)
After retessellation of defect 75 (v0=111977), euler #=-35 (144426,432431,287970) : difference with theory (-35) = 0

CORRECTING DEFECT 76 (vertices=212, convex hull=110, v0=114549)
After retessellation of defect 76 (v0=114549), euler #=-34 (144493,432683,288156) : difference with theory (-34) = 0

CORRECTING DEFECT 77 (vertices=21, convex hull=25, v0=116123)
After retessellation of defect 77 (v0=116123), euler #=-33 (144495,432697,288169) : difference with theory (-33) = 0

CORRECTING DEFECT 78 (vertices=26, convex hull=54, v0=117255)
After retessellation of defect 78 (v0=117255), euler #=-32 (144510,432765,288223) : difference with theory (-32) = 0

CORRECTING DEFECT 79 (vertices=9, convex hull=31, v0=119496)
After retessellation of defect 79 (v0=119496), euler #=-31 (144512,432782,288239) : difference with theory (-31) = 0

CORRECTING DEFECT 80 (vertices=127, convex hull=81, v0=119517)
After retessellation of defect 80 (v0=119517), euler #=-30 (144534,432878,288314) : difference with theory (-30) = 0

CORRECTING DEFECT 81 (vertices=60, convex hull=77, v0=119859)
After retessellation of defect 81 (v0=119859), euler #=-29 (144563,432999,288407) : difference with theory (-29) = 0

CORRECTING DEFECT 82 (vertices=63, convex hull=52, v0=120588)
After retessellation of defect 82 (v0=120588), euler #=-28 (144581,433072,288463) : difference with theory (-28) = 0

CORRECTING DEFECT 83 (vertices=11, convex hull=14, v0=122611)
After retessellation of defect 83 (v0=122611), euler #=-27 (144583,433080,288470) : difference with theory (-27) = 0

CORRECTING DEFECT 84 (vertices=98, convex hull=59, v0=123272)
After retessellation of defect 84 (v0=123272), euler #=-27 (144606,433181,288548) : difference with theory (-26) = 1

CORRECTING DEFECT 85 (vertices=22, convex hull=59, v0=124124)
After retessellation of defect 85 (v0=124124), euler #=-26 (144618,433238,288594) : difference with theory (-25) = 1

CORRECTING DEFECT 86 (vertices=33, convex hull=55, v0=126233)
After retessellation of defect 86 (v0=126233), euler #=-25 (144633,433304,288646) : difference with theory (-24) = 1

CORRECTING DEFECT 87 (vertices=37, convex hull=31, v0=126243)
After retessellation of defect 87 (v0=126243), euler #=-24 (144641,433336,288671) : difference with theory (-23) = 1

CORRECTING DEFECT 88 (vertices=6, convex hull=21, v0=126288)
After retessellation of defect 88 (v0=126288), euler #=-23 (144642,433345,288680) : difference with theory (-22) = 1

CORRECTING DEFECT 89 (vertices=84, convex hull=122, v0=126880)
After retessellation of defect 89 (v0=126880), euler #=-22 (144660,433453,288771) : difference with theory (-21) = 1

CORRECTING DEFECT 90 (vertices=42, convex hull=26, v0=127364)
After retessellation of defect 90 (v0=127364), euler #=-21 (144661,433463,288781) : difference with theory (-20) = 1

CORRECTING DEFECT 91 (vertices=6, convex hull=31, v0=128052)
After retessellation of defect 91 (v0=128052), euler #=-20 (144662,433475,288793) : difference with theory (-19) = 1

CORRECTING DEFECT 92 (vertices=60, convex hull=35, v0=128985)
After retessellation of defect 92 (v0=128985), euler #=-19 (144676,433531,288836) : difference with theory (-18) = 1

CORRECTING DEFECT 93 (vertices=44, convex hull=33, v0=130702)
After retessellation of defect 93 (v0=130702), euler #=-18 (144683,433564,288863) : difference with theory (-17) = 1

CORRECTING DEFECT 94 (vertices=90, convex hull=61, v0=131556)
After retessellation of defect 94 (v0=131556), euler #=-17 (144701,433642,288924) : difference with theory (-16) = 1

CORRECTING DEFECT 95 (vertices=24, convex hull=48, v0=135060)
After retessellation of defect 95 (v0=135060), euler #=-16 (144710,433689,288963) : difference with theory (-15) = 1

CORRECTING DEFECT 96 (vertices=18, convex hull=31, v0=138914)
After retessellation of defect 96 (v0=138914), euler #=-15 (144711,433705,288979) : difference with theory (-14) = 1

CORRECTING DEFECT 97 (vertices=108, convex hull=64, v0=139097)
After retessellation of defect 97 (v0=139097), euler #=-13 (144720,433765,289032) : difference with theory (-13) = 0

CORRECTING DEFECT 98 (vertices=78, convex hull=64, v0=139833)
After retessellation of defect 98 (v0=139833), euler #=-12 (144732,433832,289088) : difference with theory (-12) = 0

CORRECTING DEFECT 99 (vertices=37, convex hull=84, v0=140012)
After retessellation of defect 99 (v0=140012), euler #=-11 (144742,433900,289147) : difference with theory (-11) = 0

CORRECTING DEFECT 100 (vertices=91, convex hull=116, v0=143103)
After retessellation of defect 100 (v0=143103), euler #=-10 (144762,434013,289241) : difference with theory (-10) = 0

CORRECTING DEFECT 101 (vertices=12, convex hull=27, v0=144406)
After retessellation of defect 101 (v0=144406), euler #=-9 (144763,434024,289252) : difference with theory (-9) = 0

CORRECTING DEFECT 102 (vertices=18, convex hull=20, v0=145039)
After retessellation of defect 102 (v0=145039), euler #=-8 (144763,434029,289258) : difference with theory (-8) = 0

CORRECTING DEFECT 103 (vertices=36, convex hull=70, v0=146781)
After retessellation of defect 103 (v0=146781), euler #=-7 (144784,434119,289328) : difference with theory (-7) = 0

CORRECTING DEFECT 104 (vertices=39, convex hull=71, v0=148019)
After retessellation of defect 104 (v0=148019), euler #=-6 (144799,434194,289389) : difference with theory (-6) = 0

CORRECTING DEFECT 105 (vertices=44, convex hull=71, v0=149099)
After retessellation of defect 105 (v0=149099), euler #=-5 (144827,434307,289475) : difference with theory (-5) = 0

CORRECTING DEFECT 106 (vertices=26, convex hull=70, v0=151812)
After retessellation of defect 106 (v0=151812), euler #=-4 (144837,434367,289526) : difference with theory (-4) = 0

CORRECTING DEFECT 107 (vertices=144, convex hull=80, v0=152519)
After retessellation of defect 107 (v0=152519), euler #=-3 (144853,434450,289594) : difference with theory (-3) = 0

CORRECTING DEFECT 108 (vertices=45, convex hull=87, v0=152950)
After retessellation of defect 108 (v0=152950), euler #=-2 (144880,434567,289685) : difference with theory (-2) = 0

CORRECTING DEFECT 109 (vertices=43, convex hull=74, v0=153695)
After retessellation of defect 109 (v0=153695), euler #=-1 (144903,434663,289759) : difference with theory (-1) = 0

CORRECTING DEFECT 110 (vertices=69, convex hull=47, v0=154183)
After retessellation of defect 110 (v0=154183), euler #=0 (144910,434701,289791) : difference with theory (0) = 0

CORRECTING DEFECT 111 (vertices=26, convex hull=57, v0=154227)
After retessellation of defect 111 (v0=154227), euler #=1 (144924,434762,289839) : difference with theory (1) = 0

CORRECTING DEFECT 112 (vertices=19, convex hull=19, v0=155536)
After retessellation of defect 112 (v0=155536), euler #=2 (144925,434769,289846) : difference with theory (2) = 0
computing original vertex metric properties...
storing new metric properties...
computing tessellation statistics...
vertex spacing 0.90 +- 0.33 (0.02-->13.45) (max @ vno 91213 --> 147477)
face area 0.00 +- 0.00 (0.00-->0.00)
performing soap bubble on retessellated vertices for 0 iterations...
vertex spacing 0.90 +- 0.33 (0.02-->13.45) (max @ vno 91213 --> 147477)
face area 0.00 +- 0.00 (0.00-->0.00)
tessellation finished, orienting corrected surface...
424 mutations (37.6%), 704 crossovers (62.4%), 536 vertices were eliminated
building final representation...
10679 vertices and 0 faces have been removed from triangulation
after topology correction, eno=2 (nv=144925, nf=289846, ne=434769, g=0)
writing corrected surface to /study2/emowrap/data/freesurfer/subjects/066/surf/lh.orig...

0.000 % of the vertices (0 vertices) exhibit an orientation change
topology fixing took 212.0 minutes
0 defective edges
removing intersecting faces
000: 1519 intersecting
001: 111 intersecting
002: 32 intersecting
003: 5 intersecting
mris_fix_topology utimesec    12627.995928
mris_fix_topology stimesec    10.702436
mris_fix_topology ru_maxrss   589036
mris_fix_topology ru_ixrss    0
mris_fix_topology ru_idrss    0
mris_fix_topology ru_isrss    0
mris_fix_topology ru_minflt   4183148
mris_fix_topology ru_majflt   0
mris_fix_topology ru_nswap    0
mris_fix_topology ru_inblock  0
mris_fix_topology ru_oublock  13840
mris_fix_topology ru_msgsnd   0
mris_fix_topology ru_msgrcv   0
mris_fix_topology ru_nsignals 0
mris_fix_topology ru_nvcsw    164
mris_fix_topology ru_nivcsw   103929
FSRUNTIME@ mris_fix_topology lh  3.5340 hours 1 threads
#@# Fix Topology rh Tue Jan 14 17:57:56 CST 2020

 mris_fix_topology -rusage /study2/emowrap/data/freesurfer/subjects/066/touch/rusage.mris_fix_topology.rh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 066 rh

reading spherical homeomorphism from 'qsphere.nofix'
using genetic algorithm with optimized parameters
setting seed for random number genererator to 1234

*************************************************************
Topology Correction Parameters
retessellation mode:           genetic search
number of patches/generation : 10
number of generations :        10
surface mri loglikelihood coefficient :         1.0
volume mri loglikelihood coefficient :          10.0
normal dot loglikelihood coefficient :          1.0
quadratic curvature loglikelihood coefficient : 1.0
volume resolution :                             2
eliminate vertices during search :              1
initial patch selection :                       1
select all defect vertices :                    0
ordering dependant retessellation:              0
use precomputed edge table :                    0
smooth retessellated patch :                    2
match retessellated patch :                     1
verbose mode :                                  0

*************************************************************
INFO: assuming .mgz format
$Id: mris_fix_topology.c,v 1.50.2.1 2016/10/27 22:25:58 zkaufman Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
before topology correction, eno=-224 (nv=159558, nf=319564, ne=479346, g=113)
using quasi-homeomorphic spherical map to tessellate cortical surface...

Correction of the Topology
Finding true center and radius of Spherical Surface...done
Surface centered at (0,0,0) with radius 100.0 in 9 iterations
marking ambiguous vertices...
15350 ambiguous faces found in tessellation
segmenting defects...
121 defects found, arbitrating ambiguous regions...
analyzing neighboring defects...
      -merging segment 3 into 0
      -merging segment 70 into 67
      -merging segment 101 into 95
      -merging segment 99 into 98
117 defects to be corrected
0 vertices coincident
reading input surface /study2/emowrap/data/freesurfer/subjects/066/surf/rh.qsphere.nofix...
reading brain volume from brain...
reading wm segmentation from wm...
Computing Initial Surface Statistics
      -face       loglikelihood: -9.7053  (-4.8527)
      -vertex     loglikelihood: -6.7763  (-3.3881)
      -normal dot loglikelihood: -3.6198  (-3.6198)
      -quad curv  loglikelihood: -6.2747  (-3.1373)
      Total Loglikelihood : -26.3762

CORRECTING DEFECT 0 (vertices=1354, convex hull=415, v0=7)
L defect detected...
After retessellation of defect 0 (v0=7), euler #=-111 (150532,448562,297919) : difference with theory (-114) = -3

CORRECTING DEFECT 1 (vertices=31, convex hull=64, v0=77)
After retessellation of defect 1 (v0=77), euler #=-110 (150545,448624,297969) : difference with theory (-113) = -3

CORRECTING DEFECT 2 (vertices=118, convex hull=79, v0=171)
After retessellation of defect 2 (v0=171), euler #=-109 (150560,448701,298032) : difference with theory (-112) = -3

CORRECTING DEFECT 3 (vertices=320, convex hull=119, v0=556)
After retessellation of defect 3 (v0=556), euler #=-108 (150593,448852,298151) : difference with theory (-111) = -3

CORRECTING DEFECT 4 (vertices=9, convex hull=27, v0=1003)
After retessellation of defect 4 (v0=1003), euler #=-107 (150593,448860,298160) : difference with theory (-110) = -3

CORRECTING DEFECT 5 (vertices=36, convex hull=54, v0=2627)
After retessellation of defect 5 (v0=2627), euler #=-106 (150606,448918,298206) : difference with theory (-109) = -3

CORRECTING DEFECT 6 (vertices=334, convex hull=148, v0=3083)
After retessellation of defect 6 (v0=3083), euler #=-105 (150658,449144,298381) : difference with theory (-108) = -3

CORRECTING DEFECT 7 (vertices=13, convex hull=25, v0=3813)
After retessellation of defect 7 (v0=3813), euler #=-104 (150660,449162,298398) : difference with theory (-107) = -3

CORRECTING DEFECT 8 (vertices=5, convex hull=18, v0=6527)
After retessellation of defect 8 (v0=6527), euler #=-103 (150660,449167,298404) : difference with theory (-106) = -3

CORRECTING DEFECT 9 (vertices=6, convex hull=23, v0=6650)
After retessellation of defect 9 (v0=6650), euler #=-102 (150662,449179,298415) : difference with theory (-105) = -3

CORRECTING DEFECT 10 (vertices=17, convex hull=22, v0=9245)
After retessellation of defect 10 (v0=9245), euler #=-101 (150664,449189,298424) : difference with theory (-104) = -3

CORRECTING DEFECT 11 (vertices=21, convex hull=54, v0=12630)
After retessellation of defect 11 (v0=12630), euler #=-100 (150672,449232,298460) : difference with theory (-103) = -3

CORRECTING DEFECT 12 (vertices=18, convex hull=72, v0=13489)
After retessellation of defect 12 (v0=13489), euler #=-99 (150683,449290,298508) : difference with theory (-102) = -3

CORRECTING DEFECT 13 (vertices=48, convex hull=70, v0=18193)
After retessellation of defect 13 (v0=18193), euler #=-98 (150715,449412,298599) : difference with theory (-101) = -3

CORRECTING DEFECT 14 (vertices=56, convex hull=92, v0=18659)
After retessellation of defect 14 (v0=18659), euler #=-97 (150744,449541,298700) : difference with theory (-100) = -3

CORRECTING DEFECT 15 (vertices=16, convex hull=23, v0=19843)
After retessellation of defect 15 (v0=19843), euler #=-96 (150747,449557,298714) : difference with theory (-99) = -3

CORRECTING DEFECT 16 (vertices=15, convex hull=25, v0=31101)
After retessellation of defect 16 (v0=31101), euler #=-95 (150750,449572,298727) : difference with theory (-98) = -3

CORRECTING DEFECT 17 (vertices=12, convex hull=21, v0=33170)
After retessellation of defect 17 (v0=33170), euler #=-94 (150751,449584,298739) : difference with theory (-97) = -3

CORRECTING DEFECT 18 (vertices=5, convex hull=28, v0=33631)
After retessellation of defect 18 (v0=33631), euler #=-93 (150752,449593,298748) : difference with theory (-96) = -3

CORRECTING DEFECT 19 (vertices=33, convex hull=36, v0=35451)
After retessellation of defect 19 (v0=35451), euler #=-92 (150756,449619,298771) : difference with theory (-95) = -3

CORRECTING DEFECT 20 (vertices=89, convex hull=87, v0=37937)
After retessellation of defect 20 (v0=37937), euler #=-91 (150789,449755,298875) : difference with theory (-94) = -3

CORRECTING DEFECT 21 (vertices=32, convex hull=23, v0=40509)
After retessellation of defect 21 (v0=40509), euler #=-90 (150790,449764,298884) : difference with theory (-93) = -3

CORRECTING DEFECT 22 (vertices=46, convex hull=41, v0=47018)
After retessellation of defect 22 (v0=47018), euler #=-89 (150798,449804,298917) : difference with theory (-92) = -3

CORRECTING DEFECT 23 (vertices=95, convex hull=93, v0=47732)
After retessellation of defect 23 (v0=47732), euler #=-88 (150812,449884,298984) : difference with theory (-91) = -3

CORRECTING DEFECT 24 (vertices=37, convex hull=77, v0=48076)
After retessellation of defect 24 (v0=48076), euler #=-87 (150829,449965,299049) : difference with theory (-90) = -3

CORRECTING DEFECT 25 (vertices=485, convex hull=184, v0=50081)
After retessellation of defect 25 (v0=50081), euler #=-86 (150865,450158,299207) : difference with theory (-89) = -3

CORRECTING DEFECT 26 (vertices=56, convex hull=25, v0=50883)
After retessellation of defect 26 (v0=50883), euler #=-85 (150874,450195,299236) : difference with theory (-88) = -3

CORRECTING DEFECT 27 (vertices=24, convex hull=72, v0=53851)
After retessellation of defect 27 (v0=53851), euler #=-84 (150883,450250,299283) : difference with theory (-87) = -3

CORRECTING DEFECT 28 (vertices=61, convex hull=68, v0=57085)
After retessellation of defect 28 (v0=57085), euler #=-83 (150908,450353,299362) : difference with theory (-86) = -3

CORRECTING DEFECT 29 (vertices=18, convex hull=52, v0=57477)
After retessellation of defect 29 (v0=57477), euler #=-82 (150918,450403,299403) : difference with theory (-85) = -3

CORRECTING DEFECT 30 (vertices=32, convex hull=30, v0=59190)
After retessellation of defect 30 (v0=59190), euler #=-81 (150924,450430,299425) : difference with theory (-84) = -3

CORRECTING DEFECT 31 (vertices=182, convex hull=169, v0=59310)
After retessellation of defect 31 (v0=59310), euler #=-80 (150954,450598,299564) : difference with theory (-83) = -3

CORRECTING DEFECT 32 (vertices=46, convex hull=23, v0=61949)
After retessellation of defect 32 (v0=61949), euler #=-79 (150957,450612,299576) : difference with theory (-82) = -3

CORRECTING DEFECT 33 (vertices=7, convex hull=25, v0=63110)
After retessellation of defect 33 (v0=63110), euler #=-78 (150960,450626,299588) : difference with theory (-81) = -3

CORRECTING DEFECT 34 (vertices=24, convex hull=41, v0=65975)
After retessellation of defect 34 (v0=65975), euler #=-77 (150969,450668,299622) : difference with theory (-80) = -3

CORRECTING DEFECT 35 (vertices=18, convex hull=29, v0=67739)
After retessellation of defect 35 (v0=67739), euler #=-76 (150972,450684,299636) : difference with theory (-79) = -3

CORRECTING DEFECT 36 (vertices=9, convex hull=27, v0=68970)
After retessellation of defect 36 (v0=68970), euler #=-75 (150974,450697,299648) : difference with theory (-78) = -3

CORRECTING DEFECT 37 (vertices=240, convex hull=158, v0=70038)
After retessellation of defect 37 (v0=70038), euler #=-74 (151011,450883,299798) : difference with theory (-77) = -3

CORRECTING DEFECT 38 (vertices=98, convex hull=103, v0=70158)
After retessellation of defect 38 (v0=70158), euler #=-73 (151021,450956,299862) : difference with theory (-76) = -3

CORRECTING DEFECT 39 (vertices=28, convex hull=47, v0=71322)
After retessellation of defect 39 (v0=71322), euler #=-72 (151030,450999,299897) : difference with theory (-75) = -3

CORRECTING DEFECT 40 (vertices=510, convex hull=309, v0=72415)
After retessellation of defect 40 (v0=72415), euler #=-71 (151139,451482,300272) : difference with theory (-74) = -3

CORRECTING DEFECT 41 (vertices=102, convex hull=152, v0=73534)
After retessellation of defect 41 (v0=73534), euler #=-70 (151199,451731,300462) : difference with theory (-73) = -3

CORRECTING DEFECT 42 (vertices=27, convex hull=48, v0=75893)
After retessellation of defect 42 (v0=75893), euler #=-69 (151208,451776,300499) : difference with theory (-72) = -3

CORRECTING DEFECT 43 (vertices=5, convex hull=13, v0=75944)
After retessellation of defect 43 (v0=75944), euler #=-68 (151209,451782,300505) : difference with theory (-71) = -3

CORRECTING DEFECT 44 (vertices=35, convex hull=27, v0=76488)
After retessellation of defect 44 (v0=76488), euler #=-67 (151211,451801,300523) : difference with theory (-70) = -3

CORRECTING DEFECT 45 (vertices=6, convex hull=13, v0=78805)
After retessellation of defect 45 (v0=78805), euler #=-66 (151212,451808,300530) : difference with theory (-69) = -3

CORRECTING DEFECT 46 (vertices=56, convex hull=49, v0=79648)
After retessellation of defect 46 (v0=79648), euler #=-65 (151241,451913,300607) : difference with theory (-68) = -3

CORRECTING DEFECT 47 (vertices=26, convex hull=20, v0=79969)
After retessellation of defect 47 (v0=79969), euler #=-64 (151243,451923,300616) : difference with theory (-67) = -3

CORRECTING DEFECT 48 (vertices=29, convex hull=28, v0=81473)
After retessellation of defect 48 (v0=81473), euler #=-63 (151248,451944,300633) : difference with theory (-66) = -3

CORRECTING DEFECT 49 (vertices=26, convex hull=15, v0=84226)
After retessellation of defect 49 (v0=84226), euler #=-62 (151249,451950,300639) : difference with theory (-65) = -3

CORRECTING DEFECT 50 (vertices=168, convex hull=52, v0=84914)
After retessellation of defect 50 (v0=84914), euler #=-61 (151259,451997,300677) : difference with theory (-64) = -3

CORRECTING DEFECT 51 (vertices=7, convex hull=31, v0=92510)
After retessellation of defect 51 (v0=92510), euler #=-60 (151261,452013,300692) : difference with theory (-63) = -3

CORRECTING DEFECT 52 (vertices=23, convex hull=24, v0=92592)
After retessellation of defect 52 (v0=92592), euler #=-59 (151264,452032,300709) : difference with theory (-62) = -3

CORRECTING DEFECT 53 (vertices=139, convex hull=141, v0=93283)
After retessellation of defect 53 (v0=93283), euler #=-58 (151273,452128,300797) : difference with theory (-61) = -3

CORRECTING DEFECT 54 (vertices=189, convex hull=48, v0=96779)
After retessellation of defect 54 (v0=96779), euler #=-57 (151288,452190,300845) : difference with theory (-60) = -3

CORRECTING DEFECT 55 (vertices=123, convex hull=105, v0=97186)
After retessellation of defect 55 (v0=97186), euler #=-56 (151299,452271,300916) : difference with theory (-59) = -3

CORRECTING DEFECT 56 (vertices=46, convex hull=64, v0=98812)
After retessellation of defect 56 (v0=98812), euler #=-55 (151315,452345,300975) : difference with theory (-58) = -3

CORRECTING DEFECT 57 (vertices=42, convex hull=84, v0=100599)
After retessellation of defect 57 (v0=100599), euler #=-54 (151343,452468,301071) : difference with theory (-57) = -3

CORRECTING DEFECT 58 (vertices=68, convex hull=77, v0=100671)
After retessellation of defect 58 (v0=100671), euler #=-53 (151364,452564,301147) : difference with theory (-56) = -3

CORRECTING DEFECT 59 (vertices=20, convex hull=20, v0=102070)
After retessellation of defect 59 (v0=102070), euler #=-52 (151368,452580,301160) : difference with theory (-55) = -3

CORRECTING DEFECT 60 (vertices=18, convex hull=23, v0=102488)
After retessellation of defect 60 (v0=102488), euler #=-51 (151371,452596,301174) : difference with theory (-54) = -3

CORRECTING DEFECT 61 (vertices=19, convex hull=29, v0=103182)
After retessellation of defect 61 (v0=103182), euler #=-50 (151374,452616,301192) : difference with theory (-53) = -3

CORRECTING DEFECT 62 (vertices=42, convex hull=37, v0=106248)
After retessellation of defect 62 (v0=106248), euler #=-49 (151390,452677,301238) : difference with theory (-52) = -3

CORRECTING DEFECT 63 (vertices=175, convex hull=129, v0=106325)
After retessellation of defect 63 (v0=106325), euler #=-49 (151452,452928,301427) : difference with theory (-51) = -2

CORRECTING DEFECT 64 (vertices=59, convex hull=72, v0=107001)
After retessellation of defect 64 (v0=107001), euler #=-48 (151480,453043,301515) : difference with theory (-50) = -2

CORRECTING DEFECT 65 (vertices=27, convex hull=25, v0=107367)
After retessellation of defect 65 (v0=107367), euler #=-47 (151484,453062,301531) : difference with theory (-49) = -2

CORRECTING DEFECT 66 (vertices=206, convex hull=112, v0=107835)
After retessellation of defect 66 (v0=107835), euler #=-46 (151522,453235,301667) : difference with theory (-48) = -2

CORRECTING DEFECT 67 (vertices=10, convex hull=24, v0=108343)
After retessellation of defect 67 (v0=108343), euler #=-45 (151525,453251,301681) : difference with theory (-47) = -2

CORRECTING DEFECT 68 (vertices=154, convex hull=132, v0=109248)
After retessellation of defect 68 (v0=109248), euler #=-44 (151533,453330,301753) : difference with theory (-46) = -2

CORRECTING DEFECT 69 (vertices=26, convex hull=51, v0=112296)
After retessellation of defect 69 (v0=112296), euler #=-43 (151548,453393,301802) : difference with theory (-45) = -2

CORRECTING DEFECT 70 (vertices=29, convex hull=51, v0=114574)
After retessellation of defect 70 (v0=114574), euler #=-42 (151563,453458,301853) : difference with theory (-44) = -2

CORRECTING DEFECT 71 (vertices=124, convex hull=120, v0=115208)
After retessellation of defect 71 (v0=115208), euler #=-41 (151576,453548,301931) : difference with theory (-43) = -2

CORRECTING DEFECT 72 (vertices=175, convex hull=158, v0=116116)
After retessellation of defect 72 (v0=116116), euler #=-40 (151657,453862,302165) : difference with theory (-42) = -2

CORRECTING DEFECT 73 (vertices=24, convex hull=65, v0=116175)
After retessellation of defect 73 (v0=116175), euler #=-39 (151669,453921,302213) : difference with theory (-41) = -2

CORRECTING DEFECT 74 (vertices=39, convex hull=38, v0=116618)
After retessellation of defect 74 (v0=116618), euler #=-38 (151678,453962,302246) : difference with theory (-40) = -2

CORRECTING DEFECT 75 (vertices=436, convex hull=316, v0=121165)
After retessellation of defect 75 (v0=121165), euler #=-38 (151840,454625,302747) : difference with theory (-39) = -1

CORRECTING DEFECT 76 (vertices=22, convex hull=32, v0=123418)
After retessellation of defect 76 (v0=123418), euler #=-37 (151843,454646,302766) : difference with theory (-38) = -1

CORRECTING DEFECT 77 (vertices=61, convex hull=71, v0=123648)
After retessellation of defect 77 (v0=123648), euler #=-36 (151876,454778,302866) : difference with theory (-37) = -1

CORRECTING DEFECT 78 (vertices=71, convex hull=66, v0=124237)
After retessellation of defect 78 (v0=124237), euler #=-35 (151901,454880,302944) : difference with theory (-36) = -1

CORRECTING DEFECT 79 (vertices=5, convex hull=28, v0=124739)
After retessellation of defect 79 (v0=124739), euler #=-34 (151902,454890,302954) : difference with theory (-35) = -1

CORRECTING DEFECT 80 (vertices=48, convex hull=85, v0=124815)
After retessellation of defect 80 (v0=124815), euler #=-33 (151921,454984,303030) : difference with theory (-34) = -1

CORRECTING DEFECT 81 (vertices=94, convex hull=45, v0=125590)
After retessellation of defect 81 (v0=125590), euler #=-32 (151946,455076,303098) : difference with theory (-33) = -1

CORRECTING DEFECT 82 (vertices=6, convex hull=30, v0=126078)
After retessellation of defect 82 (v0=126078), euler #=-31 (151946,455086,303109) : difference with theory (-32) = -1

CORRECTING DEFECT 83 (vertices=10, convex hull=30, v0=126832)
After retessellation of defect 83 (v0=126832), euler #=-30 (151947,455097,303120) : difference with theory (-31) = -1

CORRECTING DEFECT 84 (vertices=28, convex hull=64, v0=126957)
After retessellation of defect 84 (v0=126957), euler #=-29 (151961,455163,303173) : difference with theory (-30) = -1

CORRECTING DEFECT 85 (vertices=170, convex hull=121, v0=129118)
After retessellation of defect 85 (v0=129118), euler #=-28 (152004,455344,303312) : difference with theory (-29) = -1

CORRECTING DEFECT 86 (vertices=16, convex hull=31, v0=130000)
After retessellation of defect 86 (v0=130000), euler #=-27 (152004,455354,303323) : difference with theory (-28) = -1

CORRECTING DEFECT 87 (vertices=31, convex hull=58, v0=132138)
After retessellation of defect 87 (v0=132138), euler #=-26 (152018,455420,303376) : difference with theory (-27) = -1

CORRECTING DEFECT 88 (vertices=22, convex hull=59, v0=134293)
After retessellation of defect 88 (v0=134293), euler #=-25 (152031,455480,303424) : difference with theory (-26) = -1

CORRECTING DEFECT 89 (vertices=25, convex hull=52, v0=134625)
After retessellation of defect 89 (v0=134625), euler #=-24 (152040,455529,303465) : difference with theory (-25) = -1

CORRECTING DEFECT 90 (vertices=124, convex hull=106, v0=135204)
After retessellation of defect 90 (v0=135204), euler #=-25 (152071,455690,303594) : difference with theory (-24) = 1

CORRECTING DEFECT 91 (vertices=12, convex hull=23, v0=135612)
After retessellation of defect 91 (v0=135612), euler #=-24 (152071,455697,303602) : difference with theory (-23) = 1

CORRECTING DEFECT 92 (vertices=55, convex hull=44, v0=135760)
After retessellation of defect 92 (v0=135760), euler #=-23 (152086,455764,303655) : difference with theory (-22) = 1

CORRECTING DEFECT 93 (vertices=31, convex hull=35, v0=136621)
After retessellation of defect 93 (v0=136621), euler #=-21 (152093,455794,303680) : difference with theory (-21) = 0

CORRECTING DEFECT 94 (vertices=20, convex hull=38, v0=138032)
After retessellation of defect 94 (v0=138032), euler #=-20 (152096,455814,303698) : difference with theory (-20) = 0

CORRECTING DEFECT 95 (vertices=34, convex hull=65, v0=138653)
After retessellation of defect 95 (v0=138653), euler #=-19 (152120,455910,303771) : difference with theory (-19) = 0

CORRECTING DEFECT 96 (vertices=35, convex hull=24, v0=138984)
After retessellation of defect 96 (v0=138984), euler #=-17 (152128,455942,303797) : difference with theory (-18) = -1

CORRECTING DEFECT 97 (vertices=37, convex hull=34, v0=139241)
After retessellation of defect 97 (v0=139241), euler #=-16 (152137,455981,303828) : difference with theory (-17) = -1

CORRECTING DEFECT 98 (vertices=5, convex hull=17, v0=139586)
After retessellation of defect 98 (v0=139586), euler #=-15 (152137,455985,303833) : difference with theory (-16) = -1

CORRECTING DEFECT 99 (vertices=51, convex hull=96, v0=142123)
After retessellation of defect 99 (v0=142123), euler #=-14 (152155,456076,303907) : difference with theory (-15) = -1

CORRECTING DEFECT 100 (vertices=69, convex hull=34, v0=142675)
After retessellation of defect 100 (v0=142675), euler #=-13 (152161,456104,303930) : difference with theory (-14) = -1

CORRECTING DEFECT 101 (vertices=16, convex hull=46, v0=144834)
After retessellation of defect 101 (v0=144834), euler #=-12 (152169,456146,303965) : difference with theory (-13) = -1

CORRECTING DEFECT 102 (vertices=116, convex hull=113, v0=146696)
After retessellation of defect 102 (v0=146696), euler #=-11 (152196,456282,304075) : difference with theory (-12) = -1

CORRECTING DEFECT 103 (vertices=34, convex hull=31, v0=147204)
After retessellation of defect 103 (v0=147204), euler #=-10 (152203,456312,304099) : difference with theory (-11) = -1

CORRECTING DEFECT 104 (vertices=25, convex hull=18, v0=147608)
After retessellation of defect 104 (v0=147608), euler #=-9 (152203,456318,304106) : difference with theory (-10) = -1

CORRECTING DEFECT 105 (vertices=57, convex hull=106, v0=148113)
After retessellation of defect 105 (v0=148113), euler #=-8 (152222,456420,304190) : difference with theory (-9) = -1

CORRECTING DEFECT 106 (vertices=46, convex hull=75, v0=150915)
After retessellation of defect 106 (v0=150915), euler #=-7 (152242,456511,304262) : difference with theory (-8) = -1

CORRECTING DEFECT 107 (vertices=31, convex hull=48, v0=151334)
After retessellation of defect 107 (v0=151334), euler #=-6 (152253,456564,304305) : difference with theory (-7) = -1

CORRECTING DEFECT 108 (vertices=10, convex hull=31, v0=151483)
After retessellation of defect 108 (v0=151483), euler #=-5 (152254,456576,304317) : difference with theory (-6) = -1

CORRECTING DEFECT 109 (vertices=35, convex hull=48, v0=151718)
After retessellation of defect 109 (v0=151718), euler #=-4 (152263,456625,304358) : difference with theory (-5) = -1

CORRECTING DEFECT 110 (vertices=38, convex hull=75, v0=153411)
After retessellation of defect 110 (v0=153411), euler #=-3 (152286,456726,304437) : difference with theory (-4) = -1

CORRECTING DEFECT 111 (vertices=152, convex hull=91, v0=156796)
After retessellation of defect 111 (v0=156796), euler #=-3 (152316,456861,304542) : difference with theory (-3) = 0

CORRECTING DEFECT 112 (vertices=37, convex hull=61, v0=157499)
After retessellation of defect 112 (v0=157499), euler #=-2 (152329,456922,304591) : difference with theory (-2) = 0

CORRECTING DEFECT 113 (vertices=55, convex hull=25, v0=157822)
After retessellation of defect 113 (v0=157822), euler #=-1 (152333,456941,304607) : difference with theory (-1) = 0

CORRECTING DEFECT 114 (vertices=27, convex hull=46, v0=158052)
After retessellation of defect 114 (v0=158052), euler #=0 (152339,456979,304640) : difference with theory (0) = 0

CORRECTING DEFECT 115 (vertices=104, convex hull=38, v0=158700)
After retessellation of defect 115 (v0=158700), euler #=1 (152345,457011,304667) : difference with theory (1) = 0

CORRECTING DEFECT 116 (vertices=34, convex hull=53, v0=158771)
After retessellation of defect 116 (v0=158771), euler #=2 (152355,457059,304706) : difference with theory (2) = 0
computing original vertex metric properties...
storing new metric properties...
computing tessellation statistics...
vertex spacing 0.89 +- 0.26 (0.02-->11.14) (max @ vno 214 --> 1259)
face area 0.00 +- 0.00 (0.00-->0.00)
performing soap bubble on retessellated vertices for 0 iterations...
vertex spacing 0.89 +- 0.26 (0.02-->11.14) (max @ vno 214 --> 1259)
face area 0.00 +- 0.00 (0.00-->0.00)
tessellation finished, orienting corrected surface...
403 mutations (36.6%), 699 crossovers (63.4%), 690 vertices were eliminated
building final representation...
7203 vertices and 0 faces have been removed from triangulation
after topology correction, eno=2 (nv=152355, nf=304706, ne=457059, g=0)
writing corrected surface to /study2/emowrap/data/freesurfer/subjects/066/surf/rh.orig...

defective orientation at vertex 149252(149473) with faces 295358 and 304540

defective orientation at vertex 149252(149472) with faces 295358 and 304523

defective orientation at vertex 149472(149252) with faces 295358 and 304523

defective orientation at vertex 149472(149473) with faces 295358 and 304541

defective orientation at vertex 149473(149252) with faces 304540 and 295358

defective orientation at vertex 149473(149472) with faces 304541 and 295358

0.004 % of the vertices (6 vertices) exhibit an orientation change
topology fixing took 122.4 minutes
0 defective edges
removing intersecting faces
000: 1013 intersecting
001: 26 intersecting
002: 2 intersecting
expanding nbhd size to 2
003: 12 intersecting
mris_fix_topology utimesec    7282.867012
mris_fix_topology stimesec    6.468830
mris_fix_topology ru_maxrss   495288
mris_fix_topology ru_ixrss    0
mris_fix_topology ru_idrss    0
mris_fix_topology ru_isrss    0
mris_fix_topology ru_minflt   3315563
mris_fix_topology ru_majflt   0
mris_fix_topology ru_nswap    0
mris_fix_topology ru_inblock  0
mris_fix_topology ru_oublock  14464
mris_fix_topology ru_msgsnd   0
mris_fix_topology ru_msgrcv   0
mris_fix_topology ru_nsignals 0
mris_fix_topology ru_nvcsw    130
mris_fix_topology ru_nivcsw   79023
FSRUNTIME@ mris_fix_topology rh  2.0401 hours 1 threads

 mris_euler_number ../surf/lh.orig

euler # = v-e+f = 2g-2: 144925 - 434769 + 289846 = 2 --> 0 holes
      F =2V-4:          289846 = 289850-4 (0)
      2E=3F:            869538 = 869538 (0)

total defect index = 0

 mris_euler_number ../surf/rh.orig

euler # = v-e+f = 2g-2: 152355 - 457059 + 304706 = 2 --> 0 holes
      F =2V-4:          304706 = 304710-4 (0)
      2E=3F:            914118 = 914118 (0)

total defect index = 0
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_remove_intersection ../surf/lh.orig ../surf/lh.orig

intersection removal took 0.00 hours
removing intersecting faces
000: 583 intersecting
001: 102 intersecting
002: 22 intersecting
003: 2 intersecting
writing corrected surface to ../surf/lh.orig

 rm ../surf/lh.inflated

/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_remove_intersection ../surf/rh.orig ../surf/rh.orig

intersection removal took 0.00 hours
removing intersecting faces
000: 95 intersecting
001: 12 intersecting
002: 10 intersecting
003: 4 intersecting
expanding nbhd size to 2
004: 11 intersecting
writing corrected surface to ../surf/rh.orig

 rm ../surf/rh.inflated

#--------------------------------------------
#@# Make White Surf lh Tue Jan 14 20:00:48 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 066 lh

using white.preaparc as white matter name...
only generating white matter surface
using aseg volume ../mri/aseg.presurf to prevent surfaces crossing the midline
not using aparc to prevent surfaces crossing the midline
INFO: assuming MGZ format for volumes.
using brain.finalsurfs as T1 volume...
$Id: mris_make_surfaces.c,v 1.164.2.4 2016/12/13 22:26:32 zkaufman Exp $
$Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/filled.mgz...
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/brain.finalsurfs.mgz...
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/../mri/aseg.presurf.mgz...
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/wm.mgz...
32301 bright wm thresholded.
4673 bright non-wm voxels segmented.
reading original surface position from /study2/emowrap/data/freesurfer/subjects/066/surf/lh.orig...
computing class statistics...
border white:    294484 voxels (1.76%)
border gray      333423 voxels (1.99%)
WM (96.0): 96.5 +- 9.0 [70.0 --> 110.0]
GM (70.0) : 67.9 +- 12.6 [30.0 --> 110.0]
setting MIN_GRAY_AT_WHITE_BORDER to 53.4 (was 70)
setting MAX_BORDER_WHITE to 110.0 (was 105)
setting MIN_BORDER_WHITE to 66.0 (was 85)
setting MAX_CSF to 40.7 (was 40)
setting MAX_GRAY to 92.0 (was 95)
setting MAX_GRAY_AT_CSF_BORDER to 53.4 (was 75)
setting MIN_GRAY_AT_CSF_BORDER to 28.1 (was 40)
repositioning cortical surface to gray/white boundary
smoothing T1 volume with sigma = 2.000
vertex spacing 0.82 +- 0.27 (0.01-->10.08) (max @ vno 142479 --> 142553)
face area 0.28 +- 0.16 (0.00-->10.63)
mean absolute distance = 0.95 +- 1.27
4790 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
using class modes intead of means, discounting robust sigmas....
intensity peaks found at WM=101+-8.7,    GM=66+-10.4
mean inside = 90.3, mean outside = 70.4
smoothing surface for 5 iterations...
inhibiting deformation at non-cortical midline structures...
mean border=78.5, 782 (782) missing vertices, mean dist 0.1 [1.1 (%36.8)->0.8 (%63.2))]
%40 local maxima, %54 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=2.0, host=c133., nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
complete_dist_mat 0
rms 0
smooth_averages 0
remove_neg 0
ico_order 0
which_surface 0
target_radius 0.000000
nfields 0
scale 0.000000
desired_rms_height 0.000000
momentum 0.000000
nbhd_size 0
max_nbrs 0
niterations 25
nsurfaces 0
SURFACES 3
flags 0 (0)
use curv 0
no sulc 0
no rigid align 0
mris->nsize 2
mris->hemisphere 0
randomSeed 0

smoothing T1 volume with sigma = 1.000
vertex spacing 0.94 +- 0.31 (0.04-->9.76) (max @ vno 142514 --> 142515)
face area 0.28 +- 0.17 (0.00-->7.63)
mean absolute distance = 0.55 +- 0.81
5006 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
000: dt: 0.0000, sse=6029025.5, rms=13.945
001: dt: 0.5000, sse=3843147.8, rms=10.862 (22.109%)
002: dt: 0.5000, sse=2854407.0, rms=9.069 (16.507%)
003: dt: 0.5000, sse=2397556.5, rms=8.099 (10.697%)
004: dt: 0.5000, sse=2161673.2, rms=7.554 (6.729%)
005: dt: 0.5000, sse=2037262.9, rms=7.243 (4.121%)
006: dt: 0.5000, sse=1942598.6, rms=7.008 (3.243%)
007: dt: 0.5000, sse=1872450.9, rms=6.819 (2.697%)
008: dt: 0.5000, sse=1805762.5, rms=6.636 (2.681%)
009: dt: 0.5000, sse=1741327.2, rms=6.465 (2.578%)
010: dt: 0.5000, sse=1679778.6, rms=6.281 (2.846%)
011: dt: 0.5000, sse=1629860.5, rms=6.116 (2.623%)
012: dt: 0.5000, sse=1573243.1, rms=5.943 (2.823%)
013: dt: 0.5000, sse=1513681.1, rms=5.775 (2.833%)
014: dt: 0.5000, sse=1471909.1, rms=5.628 (2.548%)
015: dt: 0.5000, sse=1432965.4, rms=5.492 (2.410%)
016: dt: 0.5000, sse=1395982.4, rms=5.374 (2.161%)
017: dt: 0.5000, sse=1375360.6, rms=5.278 (1.788%)
018: dt: 0.5000, sse=1360976.0, rms=5.192 (1.615%)
019: dt: 0.5000, sse=1316682.6, rms=5.095 (1.865%)
020: dt: 0.5000, sse=1297868.8, rms=5.019 (1.499%)
021: dt: 0.5000, sse=1275538.0, rms=4.936 (1.665%)
022: dt: 0.5000, sse=1275596.4, rms=4.869 (1.338%)
023: dt: 0.5000, sse=1237542.1, rms=4.808 (1.268%)
024: dt: 0.5000, sse=1228361.8, rms=4.749 (1.224%)
rms = 4.70, time step reduction 1 of 3 to 0.250...
025: dt: 0.5000, sse=1211092.9, rms=4.703 (0.974%)
positioning took 4.3 minutes
inhibiting deformation at non-cortical midline structures...
removing 2 vertex label from ripped group
removing 1 vertex label from ripped group
removing 1 vertex label from ripped group
removing 4 vertex label from ripped group
removing 2 vertex label from ripped group
mean border=82.1, 784 (399) missing vertices, mean dist -0.4 [0.7 (%66.1)->0.3 (%33.9))]
%59 local maxima, %35 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=1.0, host=c133., nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 0.500
vertex spacing 0.90 +- 0.30 (0.03-->12.64) (max @ vno 142514 --> 142515)
face area 0.36 +- 0.24 (0.00-->12.66)
mean absolute distance = 0.35 +- 0.53
4721 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
000: dt: 0.0000, sse=2091324.0, rms=6.961
026: dt: 0.5000, sse=1526908.5, rms=5.228 (24.899%)
027: dt: 0.5000, sse=1412755.2, rms=4.832 (7.581%)
028: dt: 0.5000, sse=1376900.2, rms=4.700 (2.723%)
029: dt: 0.5000, sse=1362013.8, rms=4.638 (1.328%)
030: dt: 0.5000, sse=1353543.2, rms=4.577 (1.318%)
rms = 4.55, time step reduction 1 of 3 to 0.250...
031: dt: 0.5000, sse=1345956.0, rms=4.554 (0.498%)
032: dt: 0.2500, sse=1156065.0, rms=3.654 (19.758%)
033: dt: 0.2500, sse=1101129.9, rms=3.391 (7.192%)
034: dt: 0.2500, sse=1091110.5, rms=3.314 (2.292%)
035: dt: 0.2500, sse=1077119.8, rms=3.250 (1.933%)
rms = 3.22, time step reduction 2 of 3 to 0.125...
036: dt: 0.2500, sse=1073807.2, rms=3.220 (0.893%)
037: dt: 0.1250, sse=1050902.9, rms=3.149 (2.235%)
rms = 3.14, time step reduction 3 of 3 to 0.062...
038: dt: 0.1250, sse=1048744.6, rms=3.135 (0.421%)
positioning took 2.2 minutes
inhibiting deformation at non-cortical midline structures...
removing 4 vertex label from ripped group
removing 4 vertex label from ripped group
removing 2 vertex label from ripped group
mean border=85.0, 751 (340) missing vertices, mean dist -0.2 [0.4 (%70.8)->0.2 (%29.2))]
%76 local maxima, %18 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=0.5, host=c133., nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 0.250
vertex spacing 0.89 +- 0.31 (0.03-->13.35) (max @ vno 142514 --> 142515)
face area 0.34 +- 0.23 (0.00-->11.72)
mean absolute distance = 0.27 +- 0.42
4328 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
000: dt: 0.0000, sse=1401315.5, rms=4.974
039: dt: 0.5000, sse=1200874.0, rms=4.076 (18.044%)
rms = 4.19, time step reduction 1 of 3 to 0.250...
040: dt: 0.2500, sse=1067119.6, rms=3.480 (14.624%)
041: dt: 0.2500, sse=1026578.2, rms=3.206 (7.869%)
042: dt: 0.2500, sse=1001034.0, rms=3.124 (2.557%)
rms = 3.10, time step reduction 2 of 3 to 0.125...
043: dt: 0.2500, sse=996644.0, rms=3.098 (0.837%)
044: dt: 0.1250, sse=985299.9, rms=3.044 (1.763%)
rms = 3.03, time step reduction 3 of 3 to 0.062...
045: dt: 0.1250, sse=978350.6, rms=3.031 (0.428%)
positioning took 1.3 minutes
inhibiting deformation at non-cortical midline structures...
removing 1 vertex label from ripped group
removing 4 vertex label from ripped group
removing 2 vertex label from ripped group
mean border=85.9, 820 (311) missing vertices, mean dist -0.1 [0.3 (%57.0)->0.2 (%43.0))]
%81 local maxima, %12 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=0.2, host=c133., nav=0, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
writing white matter surface to /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white.preaparc...
writing smoothed curvature to lh.curv
000: dt: 0.0000, sse=1049474.9, rms=3.476
rms = 3.49, time step reduction 1 of 3 to 0.250...
046: dt: 0.2500, sse=992463.3, rms=3.167 (8.891%)
047: dt: 0.2500, sse=985594.9, rms=3.005 (5.115%)
rms = 3.00, time step reduction 2 of 3 to 0.125...
048: dt: 0.2500, sse=973942.7, rms=3.003 (0.090%)
rms = 2.97, time step reduction 3 of 3 to 0.062...
049: dt: 0.1250, sse=956459.6, rms=2.966 (1.220%)
positioning took 0.8 minutes
generating cortex label...
12 non-cortical segments detected
only using segment with 7490 vertices
erasing segment 1 (vno[0] = 97381)
erasing segment 2 (vno[0] = 98591)
erasing segment 3 (vno[0] = 101112)
erasing segment 4 (vno[0] = 101149)
erasing segment 5 (vno[0] = 102614)
erasing segment 6 (vno[0] = 103488)
erasing segment 7 (vno[0] = 103603)
erasing segment 8 (vno[0] = 104755)
erasing segment 9 (vno[0] = 105682)
erasing segment 10 (vno[0] = 119983)
erasing segment 11 (vno[0] = 143515)
writing cortex label to /study2/emowrap/data/freesurfer/subjects/066/label/lh.cortex.label...
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/lh.curv
writing smoothed area to lh.area
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/lh.area
vertex spacing 0.90 +- 0.33 (0.02-->13.54) (max @ vno 142514 --> 142515)
face area 0.33 +- 0.22 (0.00-->12.39)
refinement took 11.8 minutes
#--------------------------------------------
#@# Make White Surf rh Tue Jan 14 20:12:37 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 066 rh

using white.preaparc as white matter name...
only generating white matter surface
using aseg volume ../mri/aseg.presurf to prevent surfaces crossing the midline
not using aparc to prevent surfaces crossing the midline
INFO: assuming MGZ format for volumes.
using brain.finalsurfs as T1 volume...
$Id: mris_make_surfaces.c,v 1.164.2.4 2016/12/13 22:26:32 zkaufman Exp $
$Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/filled.mgz...
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/brain.finalsurfs.mgz...
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/../mri/aseg.presurf.mgz...
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/wm.mgz...
32301 bright wm thresholded.
4673 bright non-wm voxels segmented.
reading original surface position from /study2/emowrap/data/freesurfer/subjects/066/surf/rh.orig...
computing class statistics...
border white:    294484 voxels (1.76%)
border gray      333423 voxels (1.99%)
WM (96.0): 96.5 +- 9.0 [70.0 --> 110.0]
GM (70.0) : 67.9 +- 12.6 [30.0 --> 110.0]
setting MIN_GRAY_AT_WHITE_BORDER to 55.4 (was 70)
setting MAX_BORDER_WHITE to 110.0 (was 105)
setting MIN_BORDER_WHITE to 68.0 (was 85)
setting MAX_CSF to 42.7 (was 40)
setting MAX_GRAY to 92.0 (was 95)
setting MAX_GRAY_AT_CSF_BORDER to 55.4 (was 75)
setting MIN_GRAY_AT_CSF_BORDER to 30.1 (was 40)
repositioning cortical surface to gray/white boundary
smoothing T1 volume with sigma = 2.000
vertex spacing 0.82 +- 0.23 (0.02-->5.23) (max @ vno 73286 --> 151120)
face area 0.28 +- 0.13 (0.00-->6.32)
mean absolute distance = 0.87 +- 1.19
4849 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
using class modes intead of means, discounting robust sigmas....
intensity peaks found at WM=101+-8.7,    GM=68+-11.3
mean inside = 91.4, mean outside = 71.1
smoothing surface for 5 iterations...
inhibiting deformation at non-cortical midline structures...
mean border=79.9, 369 (369) missing vertices, mean dist 0.1 [1.0 (%40.6)->0.8 (%59.4))]
%39 local maxima, %57 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=2.0, host=c133., nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
complete_dist_mat 0
rms 0
smooth_averages 0
remove_neg 0
ico_order 0
which_surface 0
target_radius 0.000000
nfields 0
scale 0.000000
desired_rms_height 0.000000
momentum 0.000000
nbhd_size 0
max_nbrs 0
niterations 25
nsurfaces 0
SURFACES 3
flags 0 (0)
use curv 0
no sulc 0
no rigid align 0
mris->nsize 2
mris->hemisphere 1
randomSeed 0

smoothing T1 volume with sigma = 1.000
vertex spacing 0.90 +- 0.26 (0.06-->5.02) (max @ vno 151752 --> 151796)
face area 0.28 +- 0.14 (0.00-->4.88)
mean absolute distance = 0.49 +- 0.80
5980 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
000: dt: 0.0000, sse=4981077.0, rms=12.138
001: dt: 0.5000, sse=2688129.0, rms=8.425 (30.588%)
002: dt: 0.5000, sse=1699673.6, rms=6.084 (27.792%)
003: dt: 0.5000, sse=1283351.4, rms=4.794 (21.197%)
004: dt: 0.5000, sse=1118709.4, rms=4.157 (13.289%)
005: dt: 0.5000, sse=1045965.6, rms=3.830 (7.873%)
006: dt: 0.5000, sse=1032938.0, rms=3.685 (3.774%)
007: dt: 0.5000, sse=998103.4, rms=3.630 (1.488%)
rms = 3.58, time step reduction 1 of 3 to 0.250...
008: dt: 0.5000, sse=988440.7, rms=3.583 (1.299%)
009: dt: 0.2500, sse=800099.9, rms=2.460 (31.348%)
010: dt: 0.2500, sse=760374.5, rms=2.142 (12.922%)
011: dt: 0.2500, sse=754947.1, rms=2.068 (3.452%)
012: dt: 0.2500, sse=747266.3, rms=2.016 (2.543%)
rms = 2.00, time step reduction 2 of 3 to 0.125...
013: dt: 0.2500, sse=741239.3, rms=2.002 (0.678%)
014: dt: 0.1250, sse=740390.3, rms=1.882 (5.996%)
rms = 1.86, time step reduction 3 of 3 to 0.062...
015: dt: 0.1250, sse=731146.1, rms=1.862 (1.035%)
positioning took 2.9 minutes
inhibiting deformation at non-cortical midline structures...
removing 2 vertex label from ripped group
removing 2 vertex label from ripped group
removing 4 vertex label from ripped group
mean border=83.3, 315 (111) missing vertices, mean dist -0.3 [0.6 (%68.3)->0.3 (%31.7))]
%57 local maxima, %38 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=1.0, host=c133., nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 0.500
vertex spacing 0.89 +- 0.26 (0.08-->5.06) (max @ vno 151752 --> 151796)
face area 0.34 +- 0.17 (0.00-->5.82)
mean absolute distance = 0.34 +- 0.51
5094 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
000: dt: 0.0000, sse=1524546.8, rms=5.103
016: dt: 0.5000, sse=1135521.8, rms=3.545 (30.545%)
017: dt: 0.5000, sse=1111144.2, rms=3.483 (1.745%)
018: dt: 0.5000, sse=1114413.8, rms=3.395 (2.532%)
rms = 3.53, time step reduction 1 of 3 to 0.250...
019: dt: 0.2500, sse=929045.0, rms=2.411 (28.984%)
020: dt: 0.2500, sse=882271.6, rms=1.945 (19.305%)
021: dt: 0.2500, sse=860973.8, rms=1.777 (8.656%)
022: dt: 0.2500, sse=862162.7, rms=1.716 (3.446%)
rms = 1.67, time step reduction 2 of 3 to 0.125...
023: dt: 0.2500, sse=845222.9, rms=1.672 (2.528%)
024: dt: 0.1250, sse=835409.1, rms=1.572 (6.003%)
rms = 1.55, time step reduction 3 of 3 to 0.062...
025: dt: 0.1250, sse=835136.1, rms=1.550 (1.409%)
positioning took 2.0 minutes
inhibiting deformation at non-cortical midline structures...
removing 1 vertex label from ripped group
removing 3 vertex label from ripped group
removing 2 vertex label from ripped group
removing 2 vertex label from ripped group
removing 2 vertex label from ripped group
removing 3 vertex label from ripped group
removing 2 vertex label from ripped group
mean border=85.8, 275 (48) missing vertices, mean dist -0.2 [0.4 (%68.2)->0.2 (%31.8))]
%74 local maxima, %21 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=0.5, host=c133., nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 0.250
vertex spacing 0.88 +- 0.26 (0.07-->4.99) (max @ vno 151752 --> 151796)
face area 0.33 +- 0.17 (0.00-->5.51)
mean absolute distance = 0.27 +- 0.42
4779 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
000: dt: 0.0000, sse=1175839.2, rms=3.868
026: dt: 0.5000, sse=1047212.1, rms=2.982 (22.909%)
rms = 3.21, time step reduction 1 of 3 to 0.250...
027: dt: 0.2500, sse=875585.6, rms=2.120 (28.894%)
028: dt: 0.2500, sse=837037.8, rms=1.691 (20.257%)
029: dt: 0.2500, sse=822348.1, rms=1.592 (5.822%)
rms = 1.55, time step reduction 2 of 3 to 0.125...
030: dt: 0.2500, sse=830137.6, rms=1.553 (2.463%)
031: dt: 0.1250, sse=812950.4, rms=1.443 (7.090%)
rms = 1.42, time step reduction 3 of 3 to 0.062...
032: dt: 0.1250, sse=797755.3, rms=1.422 (1.432%)
positioning took 1.4 minutes
inhibiting deformation at non-cortical midline structures...
removing 1 vertex label from ripped group
removing 1 vertex label from ripped group
removing 2 vertex label from ripped group
removing 2 vertex label from ripped group
removing 2 vertex label from ripped group
removing 3 vertex label from ripped group
removing 3 vertex label from ripped group
removing 4 vertex label from ripped group
mean border=86.6, 345 (38) missing vertices, mean dist -0.1 [0.3 (%55.6)->0.2 (%44.4))]
%80 local maxima, %16 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=0.2, host=c133., nav=0, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
writing white matter surface to /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white.preaparc...
writing smoothed curvature to rh.curv
000: dt: 0.0000, sse=850747.8, rms=2.033
rms = 2.13, time step reduction 1 of 3 to 0.250...
033: dt: 0.2500, sse=794315.9, rms=1.495 (26.467%)
034: dt: 0.2500, sse=782551.4, rms=1.215 (18.739%)
rms = 1.24, time step reduction 2 of 3 to 0.125...
rms = 1.18, time step reduction 3 of 3 to 0.062...
035: dt: 0.1250, sse=772456.2, rms=1.178 (2.976%)
positioning took 0.8 minutes
generating cortex label...
14 non-cortical segments detected
only using segment with 7134 vertices
erasing segment 1 (vno[0] = 49424)
erasing segment 2 (vno[0] = 58232)
erasing segment 3 (vno[0] = 71886)
erasing segment 4 (vno[0] = 75347)
erasing segment 5 (vno[0] = 99175)
erasing segment 6 (vno[0] = 102731)
erasing segment 7 (vno[0] = 105203)
erasing segment 8 (vno[0] = 106204)
erasing segment 9 (vno[0] = 108327)
erasing segment 10 (vno[0] = 110473)
erasing segment 11 (vno[0] = 111400)
erasing segment 12 (vno[0] = 112216)
erasing segment 13 (vno[0] = 118452)
writing cortex label to /study2/emowrap/data/freesurfer/subjects/066/label/rh.cortex.label...
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/rh.curv
writing smoothed area to rh.area
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/rh.area
vertex spacing 0.88 +- 0.27 (0.04-->4.96) (max @ vno 151752 --> 151796)
face area 0.32 +- 0.17 (0.00-->5.39)
refinement took 10.5 minutes
#--------------------------------------------
#@# Smooth2 lh Tue Jan 14 20:23:09 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_smooth -n 3 -nw -seed 1234 ../surf/lh.white.preaparc ../surf/lh.smoothwm

smoothing for 3 iterations
setting seed for random number generator to 1234
smoothing surface tessellation for 3 iterations...
smoothing complete - recomputing first and second fundamental forms...
#--------------------------------------------
#@# Smooth2 rh Tue Jan 14 20:23:21 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_smooth -n 3 -nw -seed 1234 ../surf/rh.white.preaparc ../surf/rh.smoothwm

smoothing for 3 iterations
setting seed for random number generator to 1234
smoothing surface tessellation for 3 iterations...
smoothing complete - recomputing first and second fundamental forms...
#--------------------------------------------
#@# Inflation2 lh Tue Jan 14 20:23:32 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_inflate -rusage /study2/emowrap/data/freesurfer/subjects/066/touch/rusage.mris_inflate.lh.dat ../surf/lh.smoothwm ../surf/lh.inflated

Reading ../surf/lh.smoothwm
avg radius = 48.1 mm, total surface area = 87725 mm^2
writing inflated surface to ../surf/lh.inflated
writing sulcal depths to ../surf/lh.sulc

step 000: RMS=0.179 (target=0.015)
step 005: RMS=0.130 (target=0.015)   ep 010: RMS=0.101 (target=0.015)   
st015: RMS=0.085 (target=0.015)   
step : RMS=0.071 (target=0.015)   
step 025MS=0.062 (target=0.015)   
step 030: R0.052 (target=0.015)   
step 035: RMS=44 (target=0.015)   
step 040: RMS=0.0(target=0.015)   
step 045: RMS=0.035 rget=0.015)   
step 050: RMS=0.032 (tat=0.015)   
step 055: RMS=0.030 (targe.015)   
step 060: RMS=0.028 (target=05)   
inflation complete.
inflation took 1.0 minutes
mris_inflate utimesec    57.178224
mris_inflate stimesec    1.258850
mris_inflate ru_maxrss   186328
mris_inflate ru_ixrss    0
mris_inflate ru_idrss    0
mris_inflate ru_isrss    0
mris_inflate ru_minflt   502520
mris_inflate ru_majflt   0
mris_inflate ru_nswap    0
mris_inflate ru_inblock  160
mris_inflate ru_oublock  11336
mris_inflate ru_msgsnd   0
mris_inflate ru_msgrcv   0
mris_inflate ru_nsignals 0
mris_inflate ru_nvcsw    46
mris_inflate ru_nivcsw   1060
#--------------------------------------------
#@# Inflation2 rh Tue Jan 14 20:24:32 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_inflate -rusage /study2/emowrap/data/freesurfer/subjects/066/touch/rusage.mris_inflate.rh.dat ../surf/rh.smoothwm ../surf/rh.inflated

Reading ../surf/rh.smoothwm
avg radius = 48.6 mm, total surface area = 89854 mm^2
writing inflated surface to ../surf/rh.inflated
writing sulcal depths to ../surf/rh.sulc

step 000: RMS=0.178 (target=0.015)
step 005: RMS=0.128 (target=0.015)   ep 010: RMS=0.099 (target=0.015)   
st015: RMS=0.083 (target=0.015)   
step : RMS=0.070 (target=0.015)   
step 025MS=0.060 (target=0.015)   
step 030: R0.051 (target=0.015)   
step 035: RMS=43 (target=0.015)   
step 040: RMS=0.0(target=0.015)   
step 045: RMS=0.031 rget=0.015)   
step 050: RMS=0.029 (tat=0.015)   
step 055: RMS=0.027 (targe.015)   
step 060: RMS=0.026 (target=05)   
inflation complete.
inflation took 1.1 minutes
mris_inflate utimesec    65.560705
mris_inflate stimesec    0.799935
mris_inflate ru_maxrss   195632
mris_inflate ru_ixrss    0
mris_inflate ru_idrss    0
mris_inflate ru_isrss    0
mris_inflate ru_minflt   343440
mris_inflate ru_majflt   0
mris_inflate ru_nswap    0
mris_inflate ru_inblock  160
mris_inflate ru_oublock  11912
mris_inflate ru_msgsnd   0
mris_inflate ru_msgrcv   0
mris_inflate ru_nsignals 0
mris_inflate ru_nvcsw    54
mris_inflate ru_nivcsw   996
#--------------------------------------------
#@# Curv .H and .K lh Tue Jan 14 20:25:40 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/surf

 mris_curvature -w lh.white.preaparc

total integrated curvature = 30.364*4pi (381.566) --> -29 handles
ICI = 220.5, FI = 2058.0, variation=32827.474
writing Gaussian curvature to ./lh.white.preaparc.K...done.
writing mean curvature to ./lh.white.preaparc.H...done.
rm -f lh.white.H
ln -s lh.white.preaparc.H lh.white.H
rm -f lh.white.K
ln -s lh.white.preaparc.K lh.white.K

 mris_curvature -thresh .999 -n -a 5 -w -distances 10 10 lh.inflated

normalizing curvature values.
averaging curvature patterns 5 times.
sampling 10 neighbors out to a distance of 10 mm
183 vertices thresholded to be in k1 ~ [-0.26 1.32], k2 ~ [-0.17 0.09]
total integrated curvature = 0.470*4pi (5.904) --> 1 handles
ICI = 1.5, FI = 10.0, variation=171.286
147 vertices thresholded to be in [-0.06 0.01]
writing Gaussian curvature to ./lh.inflated.K...thresholding curvature at 99.90% level
curvature mean = 0.000, std = 0.001
119 vertices thresholded to be in [-0.15 0.28]
done.
writing mean curvature to ./lh.inflated.H...curvature mean = -0.016, std = 0.023
done.
#--------------------------------------------
#@# Curv .H and .K rh Tue Jan 14 20:28:01 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/surf

 mris_curvature -w rh.white.preaparc

total integrated curvature = 20.883*4pi (262.421) --> -20 handles
ICI = 222.8, FI = 2098.7, variation=33594.860
writing Gaussian curvature to ./rh.white.preaparc.K...done.
writing mean curvature to ./rh.white.preaparc.H...done.
rm -f rh.white.H
ln -s rh.white.preaparc.H rh.white.H
rm -f rh.white.K
ln -s rh.white.preaparc.K rh.white.K

 mris_curvature -thresh .999 -n -a 5 -w -distances 10 10 rh.inflated

normalizing curvature values.
averaging curvature patterns 5 times.
sampling 10 neighbors out to a distance of 10 mm
183 vertices thresholded to be in k1 ~ [-0.27 0.52], k2 ~ [-0.12 0.09]
total integrated curvature = 0.530*4pi (6.661) --> 0 handles
ICI = 1.5, FI = 9.2, variation=159.673
154 vertices thresholded to be in [-0.03 0.02]
writing Gaussian curvature to ./rh.inflated.K...thresholding curvature at 99.90% level
curvature mean = 0.000, std = 0.001
136 vertices thresholded to be in [-0.15 0.17]
done.
writing mean curvature to ./rh.inflated.H...curvature mean = -0.016, std = 0.021
done.

#-----------------------------------------
#@# Curvature Stats lh Tue Jan 14 20:30:20 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/surf

 mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/lh.curv.stats -F smoothwm 066 lh curv sulc

             Toggling save flag on curvature files                       [ ok ]
                 Outputting results using filestem   [ ../stats/lh.curv.stats ]
             Toggling save flag on curvature files                       [ ok ]
                                   Setting surface          [ 066/lh.smoothwm ]
                                Reading surface...                       [ ok ]
                                   Setting texture                     [ curv ]
                                Reading texture...                       [ ok ]
                                   Setting texture                     [ sulc ]
                                Reading texture...Gb_filter = 0
                       [ ok ]
      Calculating Discrete Principal Curvatures...
   Determining geometric order for vertex faces... [####################] [ ok ]
                      Determining KH curvatures... [####################] [ ok ]
                    Determining k1k2 curvatures... [####################] [ ok ]
                                   deltaViolations                      [ 261 ]
Gb_filter = 0

#-----------------------------------------
#@# Curvature Stats rh Tue Jan 14 20:30:28 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/surf

 mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/rh.curv.stats -F smoothwm 066 rh curv sulc

             Toggling save flag on curvature files                       [ ok ]
                 Outputting results using filestem   [ ../stats/rh.curv.stats ]
             Toggling save flag on curvature files                       [ ok ]
                                   Setting surface          [ 066/rh.smoothwm ]
                                Reading surface...                       [ ok ]
                                   Setting texture                     [ curv ]
                                Reading texture...                       [ ok ]
                                   Setting texture                     [ sulc ]
                                Reading texture...Gb_filter = 0
                       [ ok ]
      Calculating Discrete Principal Curvatures...
   Determining geometric order for vertex faces... [####################] [ ok ]
                      Determining KH curvatures... [####################] [ ok ]
                    Determining k1k2 curvatures... [####################] [ ok ]
                                   deltaViolations                      [ 291 ]
Gb_filter = 0

WARN:    S lookup   min:                          -0.254592
WARN:    S explicit min:                          0.000000	vertex = 24
#--------------------------------------------
#@# Sphere lh Tue Jan 14 20:30:36 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_sphere -rusage /study2/emowrap/data/freesurfer/subjects/066/touch/rusage.mris_sphere.lh.dat -seed 1234 ../surf/lh.inflated ../surf/lh.sphere

setting seed for random number genererator to 1234
$Id: mris_sphere.c,v 1.61 2016/01/20 23:42:15 greve Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading original vertex positions...
unfolding cortex into spherical form...
surface projected - minimizing metric distortion...

== Number of threads available to mris_sphere for OpenMP = 1 ==
scaling brain by 0.277...
MRISunfold() max_passes = 1 -------
tol=5.0e-01, sigma=0.0, host=c133., nav=1024, nbrs=2, l_area=1.000, l_dist=1.000
using quadratic fit line minimization
complete_dist_mat 0
rms 0
smooth_averages 0
remove_neg 0
ico_order 0
which_surface 0
target_radius 0.000000
nfields 0
scale 1.000000
desired_rms_height -1.000000
momentum 0.900000
nbhd_size 7
max_nbrs 8
niterations 25
nsurfaces 0
SURFACES 3
flags 0 (0)
use curv 0
no sulc 0
no rigid align 0
mris->nsize 2
mris->hemisphere 0
randomSeed 1234

--------------------
  mrisRemoveNegativeArea()
pass 1: epoch 1 of 3 starting distance error %21.59
pass 1: epoch 2 of 3 starting distance error %21.44
unfolding complete - removing small folds...
starting distance error %21.27
removing remaining folds...
final distance error %21.29
MRISunfold() return, current seed 1234
-01: dt=0.0000, 677 negative triangles
244: dt=0.9900, 677 negative triangles
245: dt=0.9900, 513 negative triangles
246: dt=0.9900, 513 negative triangles
247: dt=0.9900, 463 negative triangles
248: dt=0.9900, 451 negative triangles
249: dt=0.9900, 424 negative triangles
250: dt=0.9900, 425 negative triangles
251: dt=0.9900, 382 negative triangles
252: dt=0.9900, 366 negative triangles
253: dt=0.9900, 341 negative triangles
254: dt=0.9900, 320 negative triangles
255: dt=0.9900, 311 negative triangles
256: dt=0.9900, 293 negative triangles
257: dt=0.9900, 275 negative triangles
258: dt=0.9900, 272 negative triangles
259: dt=0.9900, 283 negative triangles
260: dt=0.9900, 251 negative triangles
261: dt=0.9900, 259 negative triangles
262: dt=0.9900, 247 negative triangles
263: dt=0.9900, 246 negative triangles
264: dt=0.9900, 244 negative triangles
265: dt=0.9900, 232 negative triangles
266: dt=0.9900, 230 negative triangles
267: dt=0.9900, 241 negative triangles
268: dt=0.9900, 230 negative triangles
269: dt=0.9900, 224 negative triangles
270: dt=0.9900, 221 negative triangles
271: dt=0.9900, 224 negative triangles
272: dt=0.9900, 222 negative triangles
273: dt=0.9900, 212 negative triangles
274: dt=0.9900, 221 negative triangles
275: dt=0.9900, 200 negative triangles
276: dt=0.9900, 216 negative triangles
277: dt=0.9900, 220 negative triangles
278: dt=0.9900, 211 negative triangles
279: dt=0.9900, 221 negative triangles
280: dt=0.9900, 211 negative triangles
281: dt=0.9900, 218 negative triangles
282: dt=0.9900, 209 negative triangles
283: dt=0.9900, 216 negative triangles
284: dt=0.9900, 213 negative triangles
285: dt=0.9405, 223 negative triangles
286: dt=0.9405, 214 negative triangles
287: dt=0.9405, 222 negative triangles
288: dt=0.9405, 217 negative triangles
289: dt=0.9405, 207 negative triangles
290: dt=0.9405, 207 negative triangles
291: dt=0.9405, 202 negative triangles
292: dt=0.9405, 205 negative triangles
293: dt=0.9405, 207 negative triangles
294: dt=0.9405, 203 negative triangles
295: dt=0.9405, 187 negative triangles
296: dt=0.9405, 196 negative triangles
297: dt=0.9405, 200 negative triangles
298: dt=0.9405, 203 negative triangles
299: dt=0.9405, 192 negative triangles
300: dt=0.9405, 201 negative triangles
301: dt=0.9405, 188 negative triangles
302: dt=0.9405, 177 negative triangles
303: dt=0.9405, 184 negative triangles
304: dt=0.9405, 186 negative triangles
305: dt=0.9405, 186 negative triangles
306: dt=0.9405, 182 negative triangles
307: dt=0.9405, 182 negative triangles
308: dt=0.9405, 191 negative triangles
309: dt=0.9405, 171 negative triangles
310: dt=0.9405, 176 negative triangles
311: dt=0.9405, 159 negative triangles
312: dt=0.9405, 164 negative triangles
313: dt=0.9405, 162 negative triangles
314: dt=0.9405, 160 negative triangles
315: dt=0.9405, 159 negative triangles
316: dt=0.9405, 154 negative triangles
317: dt=0.9405, 143 negative triangles
318: dt=0.9405, 153 negative triangles
319: dt=0.9405, 146 negative triangles
320: dt=0.9405, 139 negative triangles
321: dt=0.9405, 126 negative triangles
322: dt=0.9405, 138 negative triangles
323: dt=0.9405, 129 negative triangles
324: dt=0.9405, 127 negative triangles
325: dt=0.9405, 118 negative triangles
326: dt=0.9405, 130 negative triangles
327: dt=0.9405, 119 negative triangles
328: dt=0.9405, 124 negative triangles
329: dt=0.9405, 119 negative triangles
330: dt=0.9405, 118 negative triangles
331: dt=0.9405, 109 negative triangles
332: dt=0.9405, 115 negative triangles
333: dt=0.9405, 112 negative triangles
334: dt=0.9405, 113 negative triangles
335: dt=0.9405, 111 negative triangles
336: dt=0.9405, 115 negative triangles
337: dt=0.9405, 110 negative triangles
338: dt=0.9405, 110 negative triangles
339: dt=0.9405, 106 negative triangles
340: dt=0.9405, 108 negative triangles
341: dt=0.9405, 101 negative triangles
342: dt=0.9405, 111 negative triangles
343: dt=0.9405, 106 negative triangles
344: dt=0.9405, 104 negative triangles
345: dt=0.9405, 101 negative triangles
346: dt=0.9405, 105 negative triangles
347: dt=0.9405, 100 negative triangles
348: dt=0.9405, 100 negative triangles
349: dt=0.9405, 99 negative triangles
350: dt=0.9405, 96 negative triangles
351: dt=0.9405, 95 negative triangles
352: dt=0.9405, 92 negative triangles
353: dt=0.9405, 91 negative triangles
354: dt=0.9405, 94 negative triangles
355: dt=0.9405, 86 negative triangles
356: dt=0.9405, 91 negative triangles
357: dt=0.9405, 87 negative triangles
358: dt=0.9405, 88 negative triangles
359: dt=0.9405, 80 negative triangles
360: dt=0.9405, 92 negative triangles
361: dt=0.9405, 77 negative triangles
362: dt=0.9405, 86 negative triangles
363: dt=0.9405, 81 negative triangles
364: dt=0.9405, 82 negative triangles
365: dt=0.9405, 80 negative triangles
366: dt=0.9405, 78 negative triangles
367: dt=0.9405, 77 negative triangles
368: dt=0.9405, 83 negative triangles
369: dt=0.9405, 78 negative triangles
370: dt=0.9405, 86 negative triangles
371: dt=0.8935, 79 negative triangles
372: dt=0.8935, 78 negative triangles
373: dt=0.8935, 82 negative triangles
374: dt=0.8935, 80 negative triangles
375: dt=0.8935, 82 negative triangles
376: dt=0.8935, 83 negative triangles
377: dt=0.8935, 80 negative triangles
378: dt=0.8935, 82 negative triangles
379: dt=0.8935, 81 negative triangles
380: dt=0.8935, 80 negative triangles
381: dt=0.8488, 79 negative triangles
382: dt=0.8488, 80 negative triangles
383: dt=0.8488, 79 negative triangles
384: dt=0.8488, 82 negative triangles
385: dt=0.8488, 82 negative triangles
386: dt=0.8488, 87 negative triangles
387: dt=0.8488, 84 negative triangles
388: dt=0.8488, 80 negative triangles
389: dt=0.8488, 78 negative triangles
390: dt=0.8488, 81 negative triangles
391: dt=0.8064, 78 negative triangles
392: dt=0.8064, 79 negative triangles
393: dt=0.8064, 81 negative triangles
394: dt=0.8064, 81 negative triangles
395: dt=0.8064, 76 negative triangles
396: dt=0.8064, 79 negative triangles
397: dt=0.8064, 79 negative triangles
398: dt=0.8064, 81 negative triangles
399: dt=0.8064, 77 negative triangles
400: dt=0.8064, 82 negative triangles
401: dt=0.8064, 80 negative triangles
402: dt=0.8064, 83 negative triangles
403: dt=0.8064, 80 negative triangles
404: dt=0.8064, 77 negative triangles
405: dt=0.7660, 80 negative triangles
406: dt=0.7660, 79 negative triangles
407: dt=0.7660, 74 negative triangles
408: dt=0.7660, 77 negative triangles
409: dt=0.7660, 76 negative triangles
410: dt=0.7660, 77 negative triangles
411: dt=0.7660, 77 negative triangles
412: dt=0.7660, 73 negative triangles
413: dt=0.7660, 72 negative triangles
414: dt=0.7660, 77 negative triangles
415: dt=0.7660, 74 negative triangles
416: dt=0.7660, 76 negative triangles
417: dt=0.7660, 77 negative triangles
418: dt=0.7660, 78 negative triangles
419: dt=0.7660, 71 negative triangles
420: dt=0.7660, 74 negative triangles
421: dt=0.7660, 73 negative triangles
422: dt=0.7660, 74 negative triangles
423: dt=0.7660, 72 negative triangles
424: dt=0.7660, 73 negative triangles
425: dt=0.7660, 74 negative triangles
426: dt=0.7660, 74 negative triangles
427: dt=0.7660, 74 negative triangles
428: dt=0.7660, 70 negative triangles
429: dt=0.7660, 71 negative triangles
430: dt=0.7660, 71 negative triangles
431: dt=0.7660, 65 negative triangles
432: dt=0.7660, 71 negative triangles
433: dt=0.7660, 71 negative triangles
434: dt=0.7660, 71 negative triangles
435: dt=0.7660, 67 negative triangles
436: dt=0.7660, 65 negative triangles
437: dt=0.7660, 63 negative triangles
438: dt=0.7660, 63 negative triangles
439: dt=0.7660, 68 negative triangles
440: dt=0.7660, 65 negative triangles
441: dt=0.7660, 63 negative triangles
442: dt=0.7660, 69 negative triangles
443: dt=0.7660, 68 negative triangles
444: dt=0.7660, 68 negative triangles
445: dt=0.7660, 66 negative triangles
446: dt=0.7660, 63 negative triangles
447: dt=0.7277, 68 negative triangles
448: dt=0.7277, 67 negative triangles
449: dt=0.7277, 58 negative triangles
450: dt=0.7277, 62 negative triangles
451: dt=0.7277, 56 negative triangles
452: dt=0.7277, 58 negative triangles
453: dt=0.7277, 56 negative triangles
454: dt=0.7277, 60 negative triangles
455: dt=0.7277, 55 negative triangles
456: dt=0.7277, 53 negative triangles
457: dt=0.7277, 53 negative triangles
458: dt=0.7277, 60 negative triangles
459: dt=0.7277, 56 negative triangles
460: dt=0.7277, 59 negative triangles
461: dt=0.7277, 50 negative triangles
462: dt=0.7277, 53 negative triangles
463: dt=0.7277, 51 negative triangles
464: dt=0.7277, 58 negative triangles
465: dt=0.7277, 49 negative triangles
466: dt=0.7277, 54 negative triangles
467: dt=0.7277, 52 negative triangles
468: dt=0.7277, 51 negative triangles
469: dt=0.7277, 50 negative triangles
470: dt=0.7277, 53 negative triangles
471: dt=0.7277, 53 negative triangles
472: dt=0.7277, 51 negative triangles
473: dt=0.7277, 50 negative triangles
474: dt=0.7277, 50 negative triangles
475: dt=0.6914, 49 negative triangles
476: dt=0.6914, 49 negative triangles
477: dt=0.6914, 47 negative triangles
478: dt=0.6914, 50 negative triangles
479: dt=0.6914, 45 negative triangles
480: dt=0.6914, 47 negative triangles
481: dt=0.6914, 46 negative triangles
482: dt=0.6914, 49 negative triangles
483: dt=0.6914, 47 negative triangles
484: dt=0.6914, 50 negative triangles
485: dt=0.6914, 48 negative triangles
486: dt=0.6914, 46 negative triangles
487: dt=0.6914, 50 negative triangles
488: dt=0.6914, 48 negative triangles
489: dt=0.6568, 51 negative triangles
490: dt=0.6568, 48 negative triangles
491: dt=0.6568, 50 negative triangles
492: dt=0.6568, 47 negative triangles
493: dt=0.6568, 49 negative triangles
494: dt=0.6568, 47 negative triangles
495: dt=0.6568, 50 negative triangles
496: dt=0.6568, 47 negative triangles
497: dt=0.6568, 49 negative triangles
498: dt=0.6568, 47 negative triangles
499: dt=0.6239, 46 negative triangles
500: dt=0.6239, 45 negative triangles
501: dt=0.6239, 46 negative triangles
502: dt=0.6239, 49 negative triangles
503: dt=0.6239, 47 negative triangles
504: dt=0.6239, 47 negative triangles
505: dt=0.6239, 47 negative triangles
506: dt=0.6239, 43 negative triangles
507: dt=0.6239, 48 negative triangles
508: dt=0.6239, 46 negative triangles
509: dt=0.6239, 46 negative triangles
510: dt=0.6239, 44 negative triangles
511: dt=0.6239, 47 negative triangles
512: dt=0.6239, 46 negative triangles
513: dt=0.6239, 43 negative triangles
514: dt=0.6239, 48 negative triangles
515: dt=0.6239, 45 negative triangles
516: dt=0.5927, 43 negative triangles
517: dt=0.5927, 45 negative triangles
518: dt=0.5927, 46 negative triangles
519: dt=0.5927, 43 negative triangles
520: dt=0.5927, 43 negative triangles
521: dt=0.5927, 40 negative triangles
522: dt=0.5927, 45 negative triangles
523: dt=0.5927, 47 negative triangles
524: dt=0.5927, 42 negative triangles
525: dt=0.5927, 43 negative triangles
526: dt=0.5927, 45 negative triangles
527: dt=0.5927, 42 negative triangles
528: dt=0.5927, 43 negative triangles
529: dt=0.5927, 40 negative triangles
530: dt=0.5927, 45 negative triangles
531: dt=0.5631, 41 negative triangles
532: dt=0.5631, 39 negative triangles
533: dt=0.5631, 39 negative triangles
534: dt=0.5631, 37 negative triangles
535: dt=0.5631, 41 negative triangles
536: dt=0.5631, 40 negative triangles
537: dt=0.5631, 36 negative triangles
538: dt=0.5631, 34 negative triangles
539: dt=0.5631, 35 negative triangles
540: dt=0.5631, 38 negative triangles
541: dt=0.5631, 38 negative triangles
542: dt=0.5631, 35 negative triangles
543: dt=0.5631, 41 negative triangles
544: dt=0.5631, 38 negative triangles
545: dt=0.5631, 34 negative triangles
546: dt=0.5631, 38 negative triangles
547: dt=0.5631, 37 negative triangles
548: dt=0.5350, 36 negative triangles
549: dt=0.5350, 34 negative triangles
550: dt=0.5350, 38 negative triangles
551: dt=0.5350, 39 negative triangles
552: dt=0.5350, 36 negative triangles
553: dt=0.5350, 37 negative triangles
554: dt=0.5350, 34 negative triangles
555: dt=0.5350, 39 negative triangles
556: dt=0.5350, 37 negative triangles
557: dt=0.5350, 36 negative triangles
558: dt=0.5350, 31 negative triangles
559: dt=0.5350, 39 negative triangles
560: dt=0.5350, 37 negative triangles
561: dt=0.5350, 32 negative triangles
562: dt=0.5350, 40 negative triangles
563: dt=0.5350, 37 negative triangles
564: dt=0.5350, 36 negative triangles
565: dt=0.5350, 36 negative triangles
566: dt=0.5350, 37 negative triangles
567: dt=0.5350, 35 negative triangles
568: dt=0.5082, 34 negative triangles
569: dt=0.5082, 36 negative triangles
570: dt=0.5082, 37 negative triangles
571: dt=0.5082, 32 negative triangles
572: dt=0.5082, 36 negative triangles
573: dt=0.5082, 33 negative triangles
574: dt=0.5082, 33 negative triangles
575: dt=0.5082, 35 negative triangles
576: dt=0.5082, 37 negative triangles
577: dt=0.5082, 31 negative triangles
578: dt=0.4828, 31 negative triangles
579: dt=0.4828, 33 negative triangles
580: dt=0.4828, 32 negative triangles
581: dt=0.4828, 34 negative triangles
582: dt=0.4828, 34 negative triangles
583: dt=0.4828, 31 negative triangles
584: dt=0.4828, 33 negative triangles
585: dt=0.4828, 28 negative triangles
586: dt=0.4828, 28 negative triangles
587: dt=0.4828, 32 negative triangles
588: dt=0.4828, 29 negative triangles
589: dt=0.4828, 27 negative triangles
590: dt=0.4828, 28 negative triangles
591: dt=0.4828, 30 negative triangles
592: dt=0.4828, 25 negative triangles
593: dt=0.4828, 29 negative triangles
594: dt=0.4828, 26 negative triangles
595: dt=0.4828, 30 negative triangles
596: dt=0.4828, 28 negative triangles
597: dt=0.4828, 25 negative triangles
598: dt=0.4828, 26 negative triangles
599: dt=0.4828, 25 negative triangles
600: dt=0.4828, 30 negative triangles
601: dt=0.4828, 20 negative triangles
602: dt=0.4828, 23 negative triangles
603: dt=0.4828, 23 negative triangles
604: dt=0.4828, 23 negative triangles
605: dt=0.4828, 19 negative triangles
606: dt=0.4828, 21 negative triangles
607: dt=0.4828, 15 negative triangles
608: dt=0.4828, 15 negative triangles
609: dt=0.4828, 16 negative triangles
610: dt=0.4828, 22 negative triangles
611: dt=0.4828, 13 negative triangles
612: dt=0.4828, 14 negative triangles
613: dt=0.4828, 17 negative triangles
614: dt=0.4828, 17 negative triangles
615: dt=0.4828, 12 negative triangles
616: dt=0.4828, 16 negative triangles
617: dt=0.4828, 16 negative triangles
618: dt=0.4828, 10 negative triangles
619: dt=0.4828, 11 negative triangles
620: dt=0.4828, 10 negative triangles
621: dt=0.4828, 9 negative triangles
622: dt=0.4828, 12 negative triangles
623: dt=0.4828, 10 negative triangles
624: dt=0.4828, 10 negative triangles
625: dt=0.4828, 10 negative triangles
626: dt=0.4828, 9 negative triangles
627: dt=0.4828, 7 negative triangles
628: dt=0.4828, 11 negative triangles
629: dt=0.4828, 8 negative triangles
630: dt=0.4828, 6 negative triangles
631: dt=0.4828, 5 negative triangles
632: dt=0.4828, 5 negative triangles
633: dt=0.4828, 3 negative triangles
634: dt=0.4828, 2 negative triangles
635: dt=0.4828, 3 negative triangles
636: dt=0.4828, 4 negative triangles
637: dt=0.4828, 4 negative triangles
638: dt=0.4828, 2 negative triangles
639: dt=0.4828, 3 negative triangles
640: dt=0.4828, 2 negative triangles
641: dt=0.4828, 2 negative triangles
642: dt=0.4828, 2 negative triangles
643: dt=0.4828, 2 negative triangles
644: dt=0.4587, 2 negative triangles
645: dt=0.4587, 2 negative triangles
646: dt=0.4587, 2 negative triangles
647: dt=0.4587, 2 negative triangles
648: dt=0.4587, 2 negative triangles
649: dt=0.4587, 2 negative triangles
650: dt=0.4587, 2 negative triangles
651: dt=0.4587, 2 negative triangles
652: dt=0.4587, 1 negative triangles
653: dt=0.4587, 1 negative triangles
654: dt=0.4587, 1 negative triangles
655: dt=0.4587, 1 negative triangles
656: dt=0.4587, 1 negative triangles
657: dt=0.4587, 1 negative triangles
658: dt=0.4587, 1 negative triangles
659: dt=0.4587, 1 negative triangles
660: dt=0.4587, 1 negative triangles
661: dt=0.4587, 1 negative triangles
662: dt=0.4357, 1 negative triangles
663: dt=0.4357, 1 negative triangles
664: dt=0.4357, 1 negative triangles
665: dt=0.4357, 1 negative triangles
666: dt=0.4357, 1 negative triangles
667: dt=0.4357, 1 negative triangles
668: dt=0.4357, 1 negative triangles
669: dt=0.4357, 1 negative triangles
670: dt=0.4357, 1 negative triangles
671: dt=0.4357, 1 negative triangles
672: dt=0.4139, 1 negative triangles
673: dt=0.4139, 1 negative triangles
674: dt=0.4139, 1 negative triangles
675: dt=0.4139, 1 negative triangles
676: dt=0.4139, 1 negative triangles
677: dt=0.4139, 1 negative triangles
678: dt=0.4139, 1 negative triangles
expanding nbhd size to 1
679: dt=0.9900, 1 negative triangles
680: dt=0.9900, 7 negative triangles
681: dt=0.9900, 5 negative triangles
682: dt=0.9405, 4 negative triangles
683: dt=0.9405, 4 negative triangles
684: dt=0.9405, 3 negative triangles
685: dt=0.9405, 2 negative triangles
686: dt=0.9405, 1 negative triangles
687: dt=0.9405, 2 negative triangles
688: dt=0.9405, 2 negative triangles
689: dt=0.9405, 1 negative triangles
690: dt=0.9405, 2 negative triangles
691: dt=0.9405, 2 negative triangles
692: dt=0.8935, 2 negative triangles
693: dt=0.8935, 1 negative triangles
694: dt=0.8935, 3 negative triangles
695: dt=0.8935, 9 negative triangles
696: dt=0.8935, 12 negative triangles
697: dt=0.8935, 20 negative triangles
698: dt=0.8935, 24 negative triangles
699: dt=0.8935, 31 negative triangles
700: dt=0.8935, 31 negative triangles
701: dt=0.8935, 36 negative triangles
702: dt=0.8488, 34 negative triangles
703: dt=0.8488, 36 negative triangles
704: dt=0.8488, 37 negative triangles
705: dt=0.8488, 36 negative triangles
706: dt=0.8488, 36 negative triangles
707: dt=0.8488, 36 negative triangles
708: dt=0.8488, 37 negative triangles
709: dt=0.8488, 36 negative triangles
710: dt=0.8488, 36 negative triangles
711: dt=0.8488, 36 negative triangles
712: dt=0.8064, 37 negative triangles
713: dt=0.8064, 36 negative triangles
714: dt=0.8064, 36 negative triangles
715: dt=0.8064, 35 negative triangles
716: dt=0.8064, 36 negative triangles
717: dt=0.8064, 36 negative triangles
718: dt=0.8064, 38 negative triangles
719: dt=0.8064, 36 negative triangles
720: dt=0.8064, 36 negative triangles
721: dt=0.8064, 36 negative triangles
722: dt=0.7660, 37 negative triangles
723: dt=0.7660, 36 negative triangles
724: dt=0.7660, 36 negative triangles
725: dt=0.7660, 35 negative triangles
726: dt=0.7660, 36 negative triangles
727: dt=0.7660, 36 negative triangles
728: dt=0.7660, 37 negative triangles
729: dt=0.7660, 36 negative triangles
730: dt=0.7660, 36 negative triangles
731: dt=0.7660, 36 negative triangles
732: dt=0.7277, 35 negative triangles
733: dt=0.7277, 35 negative triangles
734: dt=0.7277, 36 negative triangles
735: dt=0.7277, 36 negative triangles
736: dt=0.7277, 35 negative triangles
737: dt=0.7277, 35 negative triangles
738: dt=0.7277, 34 negative triangles
739: dt=0.7277, 35 negative triangles
740: dt=0.7277, 37 negative triangles
741: dt=0.7277, 35 negative triangles
742: dt=0.6914, 35 negative triangles
743: dt=0.6914, 34 negative triangles
744: dt=0.6914, 34 negative triangles
745: dt=0.6914, 34 negative triangles
746: dt=0.6914, 33 negative triangles
747: dt=0.6914, 34 negative triangles
748: dt=0.6914, 34 negative triangles
749: dt=0.6914, 34 negative triangles
750: dt=0.6914, 34 negative triangles
751: dt=0.6914, 35 negative triangles
752: dt=0.6568, 34 negative triangles
753: dt=0.6568, 34 negative triangles
754: dt=0.6568, 33 negative triangles
755: dt=0.6568, 34 negative triangles
756: dt=0.6568, 34 negative triangles
757: dt=0.6568, 35 negative triangles
758: dt=0.6568, 34 negative triangles
759: dt=0.6568, 34 negative triangles
760: dt=0.6568, 33 negative triangles
761: dt=0.6568, 34 negative triangles
762: dt=0.6239, 34 negative triangles
763: dt=0.6239, 35 negative triangles
764: dt=0.6239, 34 negative triangles
765: dt=0.6239, 34 negative triangles
766: dt=0.6239, 33 negative triangles
767: dt=0.6239, 34 negative triangles
768: dt=0.6239, 34 negative triangles
769: dt=0.6239, 35 negative triangles
770: dt=0.6239, 34 negative triangles
771: dt=0.6239, 34 negative triangles
772: dt=0.5927, 32 negative triangles
773: dt=0.5927, 33 negative triangles
774: dt=0.5927, 33 negative triangles
775: dt=0.5927, 34 negative triangles
776: dt=0.5927, 32 negative triangles
777: dt=0.5927, 33 negative triangles
778: dt=0.5927, 33 negative triangles
779: dt=0.5927, 33 negative triangles
780: dt=0.5927, 33 negative triangles
781: dt=0.5927, 33 negative triangles
782: dt=0.5631, 32 negative triangles
783: dt=0.5631, 33 negative triangles
784: dt=0.5631, 33 negative triangles
785: dt=0.5631, 33 negative triangles
786: dt=0.5631, 32 negative triangles
787: dt=0.5631, 33 negative triangles
788: dt=0.5631, 34 negative triangles
789: dt=0.5631, 33 negative triangles
790: dt=0.5631, 33 negative triangles
791: dt=0.5631, 32 negative triangles
792: dt=0.5350, 33 negative triangles
793: dt=0.5350, 32 negative triangles
794: dt=0.5350, 33 negative triangles
795: dt=0.5350, 30 negative triangles
796: dt=0.5350, 31 negative triangles
797: dt=0.5350, 30 negative triangles
798: dt=0.5350, 30 negative triangles
799: dt=0.5350, 28 negative triangles
800: dt=0.5350, 29 negative triangles
801: dt=0.5350, 30 negative triangles
802: dt=0.5082, 29 negative triangles
803: dt=0.5082, 28 negative triangles
804: dt=0.5082, 29 negative triangles
805: dt=0.5082, 29 negative triangles
806: dt=0.5082, 29 negative triangles
807: dt=0.5082, 28 negative triangles
808: dt=0.5082, 29 negative triangles
809: dt=0.5082, 30 negative triangles
810: dt=0.5082, 28 negative triangles
811: dt=0.5082, 27 negative triangles
812: dt=0.4828, 27 negative triangles
813: dt=0.4828, 27 negative triangles
814: dt=0.4828, 27 negative triangles
815: dt=0.4828, 27 negative triangles
816: dt=0.4828, 25 negative triangles
817: dt=0.4828, 26 negative triangles
818: dt=0.4828, 28 negative triangles
819: dt=0.4828, 27 negative triangles
820: dt=0.4828, 27 negative triangles
821: dt=0.4828, 26 negative triangles
822: dt=0.4587, 25 negative triangles
823: dt=0.4587, 24 negative triangles
824: dt=0.4587, 27 negative triangles
825: dt=0.4587, 26 negative triangles
826: dt=0.4587, 25 negative triangles
827: dt=0.4587, 26 negative triangles
828: dt=0.4587, 26 negative triangles
829: dt=0.4587, 25 negative triangles
830: dt=0.4587, 24 negative triangles
831: dt=0.4587, 25 negative triangles
832: dt=0.4357, 24 negative triangles
833: dt=0.4357, 22 negative triangles
834: dt=0.4357, 23 negative triangles
835: dt=0.4357, 22 negative triangles
836: dt=0.4357, 21 negative triangles
837: dt=0.4357, 23 negative triangles
838: dt=0.4357, 23 negative triangles
839: dt=0.4357, 21 negative triangles
840: dt=0.4357, 21 negative triangles
841: dt=0.4357, 22 negative triangles
842: dt=0.4139, 21 negative triangles
843: dt=0.4139, 21 negative triangles
844: dt=0.4139, 21 negative triangles
845: dt=0.4139, 23 negative triangles
846: dt=0.4139, 20 negative triangles
847: dt=0.4139, 22 negative triangles
848: dt=0.4139, 20 negative triangles
849: dt=0.4139, 20 negative triangles
850: dt=0.4139, 20 negative triangles
851: dt=0.4139, 21 negative triangles
852: dt=0.3932, 19 negative triangles
853: dt=0.3932, 21 negative triangles
854: dt=0.3932, 20 negative triangles
855: dt=0.3932, 20 negative triangles
856: dt=0.3932, 20 negative triangles
857: dt=0.3932, 21 negative triangles
858: dt=0.3932, 19 negative triangles
859: dt=0.3932, 21 negative triangles
860: dt=0.3932, 18 negative triangles
861: dt=0.3932, 20 negative triangles
862: dt=0.3736, 19 negative triangles
863: dt=0.3736, 20 negative triangles
864: dt=0.3736, 18 negative triangles
865: dt=0.3736, 20 negative triangles
866: dt=0.3736, 18 negative triangles
867: dt=0.3736, 20 negative triangles
868: dt=0.3736, 19 negative triangles
869: dt=0.3736, 19 negative triangles
870: dt=0.3736, 18 negative triangles
871: dt=0.3736, 17 negative triangles
872: dt=0.3549, 17 negative triangles
873: dt=0.3549, 18 negative triangles
874: dt=0.3549, 17 negative triangles
875: dt=0.3549, 17 negative triangles
876: dt=0.3549, 18 negative triangles
877: dt=0.3549, 16 negative triangles
878: dt=0.3549, 18 negative triangles
879: dt=0.3549, 16 negative triangles
880: dt=0.3549, 16 negative triangles
881: dt=0.3549, 16 negative triangles
882: dt=0.3372, 16 negative triangles
883: dt=0.3372, 16 negative triangles
884: dt=0.3372, 16 negative triangles
885: dt=0.3372, 16 negative triangles
886: dt=0.3372, 16 negative triangles
887: dt=0.3372, 16 negative triangles
888: dt=0.3372, 16 negative triangles
889: dt=0.3372, 15 negative triangles
890: dt=0.3372, 17 negative triangles
891: dt=0.3372, 15 negative triangles
892: dt=0.3203, 17 negative triangles
893: dt=0.3203, 17 negative triangles
894: dt=0.3203, 16 negative triangles
895: dt=0.3203, 16 negative triangles
896: dt=0.3203, 15 negative triangles
897: dt=0.3203, 16 negative triangles
898: dt=0.3203, 14 negative triangles
899: dt=0.3203, 16 negative triangles
900: dt=0.3203, 15 negative triangles
901: dt=0.3203, 15 negative triangles
902: dt=0.3043, 15 negative triangles
903: dt=0.3043, 14 negative triangles
904: dt=0.3043, 14 negative triangles
905: dt=0.3043, 12 negative triangles
906: dt=0.3043, 14 negative triangles
907: dt=0.3043, 12 negative triangles
908: dt=0.3043, 14 negative triangles
909: dt=0.3043, 11 negative triangles
910: dt=0.3043, 11 negative triangles
911: dt=0.3043, 11 negative triangles
912: dt=0.2891, 11 negative triangles
913: dt=0.2891, 12 negative triangles
914: dt=0.2891, 10 negative triangles
915: dt=0.2891, 12 negative triangles
916: dt=0.2891, 12 negative triangles
917: dt=0.2891, 10 negative triangles
918: dt=0.2891, 10 negative triangles
919: dt=0.2891, 11 negative triangles
920: dt=0.2891, 9 negative triangles
921: dt=0.2891, 10 negative triangles
922: dt=0.2746, 10 negative triangles
923: dt=0.2746, 10 negative triangles
924: dt=0.2746, 10 negative triangles
925: dt=0.2746, 10 negative triangles
926: dt=0.2746, 11 negative triangles
927: dt=0.2746, 10 negative triangles
928: dt=0.2746, 8 negative triangles
929: dt=0.2746, 9 negative triangles
930: dt=0.2746, 9 negative triangles
931: dt=0.2746, 8 negative triangles
932: dt=0.2609, 8 negative triangles
933: dt=0.2609, 7 negative triangles
934: dt=0.2609, 8 negative triangles
935: dt=0.2609, 6 negative triangles
936: dt=0.2609, 8 negative triangles
937: dt=0.2609, 6 negative triangles
938: dt=0.2609, 7 negative triangles
939: dt=0.2609, 8 negative triangles
940: dt=0.2609, 7 negative triangles
941: dt=0.2609, 8 negative triangles
942: dt=0.2478, 6 negative triangles
943: dt=0.2478, 6 negative triangles
944: dt=0.2478, 8 negative triangles
945: dt=0.2478, 5 negative triangles
946: dt=0.2478, 6 negative triangles
947: dt=0.2478, 6 negative triangles
948: dt=0.2478, 6 negative triangles
949: dt=0.2478, 6 negative triangles
950: dt=0.2478, 6 negative triangles
951: dt=0.2478, 5 negative triangles
952: dt=0.2354, 5 negative triangles
953: dt=0.2354, 5 negative triangles
954: dt=0.2354, 7 negative triangles
955: dt=0.2354, 5 negative triangles
956: dt=0.2354, 6 negative triangles
957: dt=0.2354, 7 negative triangles
958: dt=0.2354, 5 negative triangles
959: dt=0.2354, 5 negative triangles
960: dt=0.2354, 5 negative triangles
961: dt=0.2354, 5 negative triangles
962: dt=0.2237, 6 negative triangles
963: dt=0.2237, 5 negative triangles
964: dt=0.2237, 4 negative triangles
965: dt=0.2237, 4 negative triangles
966: dt=0.2237, 5 negative triangles
967: dt=0.2237, 3 negative triangles
968: dt=0.2237, 2 negative triangles
969: dt=0.2237, 2 negative triangles
970: dt=0.2237, 2 negative triangles
971: dt=0.2237, 3 negative triangles
972: dt=0.2125, 2 negative triangles
973: dt=0.2125, 1 negative triangles
974: dt=0.2125, 3 negative triangles
975: dt=0.2125, 1 negative triangles
976: dt=0.2125, 2 negative triangles
977: dt=0.2125, 3 negative triangles
978: dt=0.2125, 2 negative triangles
979: dt=0.2125, 2 negative triangles
980: dt=0.2125, 2 negative triangles
981: dt=0.2125, 2 negative triangles
982: dt=0.2019, 2 negative triangles
983: dt=0.2019, 1 negative triangles
984: dt=0.2019, 2 negative triangles
985: dt=0.2019, 3 negative triangles
986: dt=0.2019, 1 negative triangles
987: dt=0.2019, 1 negative triangles
988: dt=0.2019, 2 negative triangles
989: dt=0.2019, 1 negative triangles
990: dt=0.2019, 2 negative triangles
991: dt=0.2019, 1 negative triangles
992: dt=0.1918, 2 negative triangles
993: dt=0.1918, 2 negative triangles
994: dt=0.1918, 2 negative triangles
995: dt=0.1918, 2 negative triangles
996: dt=0.1918, 1 negative triangles
997: dt=0.1918, 1 negative triangles
998: dt=0.1918, 1 negative triangles
999: dt=0.1918, 2 negative triangles
1000: dt=0.1918, 1 negative triangles
1001: dt=0.1918, 1 negative triangles
1002: dt=0.1822, 2 negative triangles
1003: dt=0.1822, 2 negative triangles
1004: dt=0.1822, 1 negative triangles
1005: dt=0.1822, 1 negative triangles
writing spherical brain to ../surf/lh.sphere
spherical transformation took 2.10 hours
mris_sphere utimesec    7436.893779
mris_sphere stimesec    4.325880
mris_sphere ru_maxrss   256220
mris_sphere ru_ixrss    0
mris_sphere ru_idrss    0
mris_sphere ru_isrss    0
mris_sphere ru_minflt   2754079
mris_sphere ru_majflt   0
mris_sphere ru_nswap    0
mris_sphere ru_inblock  0
mris_sphere ru_oublock  10200
mris_sphere ru_msgsnd   0
mris_sphere ru_msgrcv   0
mris_sphere ru_nsignals 0
mris_sphere ru_nvcsw    32
mris_sphere ru_nivcsw   110899
FSRUNTIME@ mris_sphere  2.0974 hours 1 threads
#--------------------------------------------
#@# Sphere rh Tue Jan 14 22:36:26 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_sphere -rusage /study2/emowrap/data/freesurfer/subjects/066/touch/rusage.mris_sphere.rh.dat -seed 1234 ../surf/rh.inflated ../surf/rh.sphere

setting seed for random number genererator to 1234
$Id: mris_sphere.c,v 1.61 2016/01/20 23:42:15 greve Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading original vertex positions...
unfolding cortex into spherical form...
surface projected - minimizing metric distortion...

== Number of threads available to mris_sphere for OpenMP = 1 ==
scaling brain by 0.269...
MRISunfold() max_passes = 1 -------
tol=5.0e-01, sigma=0.0, host=c133., nav=1024, nbrs=2, l_area=1.000, l_dist=1.000
using quadratic fit line minimization
complete_dist_mat 0
rms 0
smooth_averages 0
remove_neg 0
ico_order 0
which_surface 0
target_radius 0.000000
nfields 0
scale 1.000000
desired_rms_height -1.000000
momentum 0.900000
nbhd_size 7
max_nbrs 8
niterations 25
nsurfaces 0
SURFACES 3
flags 0 (0)
use curv 0
no sulc 0
no rigid align 0
mris->nsize 2
mris->hemisphere 1
randomSeed 1234

--------------------
  mrisRemoveNegativeArea()
pass 1: epoch 1 of 3 starting distance error %20.83
pass 1: epoch 2 of 3 starting distance error %20.75
unfolding complete - removing small folds...
starting distance error %20.64
removing remaining folds...
final distance error %20.67
MRISunfold() return, current seed 1234
-01: dt=0.0000, 451 negative triangles
190: dt=0.9900, 451 negative triangles
191: dt=0.9900, 251 negative triangles
192: dt=0.9900, 210 negative triangles
193: dt=0.9900, 191 negative triangles
194: dt=0.9900, 166 negative triangles
195: dt=0.9900, 152 negative triangles
196: dt=0.9900, 148 negative triangles
197: dt=0.9900, 137 negative triangles
198: dt=0.9900, 135 negative triangles
199: dt=0.9900, 118 negative triangles
200: dt=0.9900, 126 negative triangles
201: dt=0.9900, 108 negative triangles
202: dt=0.9900, 119 negative triangles
203: dt=0.9900, 108 negative triangles
204: dt=0.9900, 99 negative triangles
205: dt=0.9900, 99 negative triangles
206: dt=0.9900, 99 negative triangles
207: dt=0.9900, 93 negative triangles
208: dt=0.9900, 83 negative triangles
209: dt=0.9900, 81 negative triangles
210: dt=0.9900, 91 negative triangles
211: dt=0.9900, 67 negative triangles
212: dt=0.9900, 80 negative triangles
213: dt=0.9900, 63 negative triangles
214: dt=0.9900, 55 negative triangles
215: dt=0.9900, 57 negative triangles
216: dt=0.9900, 49 negative triangles
217: dt=0.9900, 45 negative triangles
218: dt=0.9900, 39 negative triangles
219: dt=0.9900, 34 negative triangles
220: dt=0.9900, 23 negative triangles
221: dt=0.9900, 23 negative triangles
222: dt=0.9900, 17 negative triangles
223: dt=0.9900, 11 negative triangles
224: dt=0.9900, 13 negative triangles
225: dt=0.9900, 8 negative triangles
226: dt=0.9900, 1 negative triangles
227: dt=0.9900, 3 negative triangles
228: dt=0.9900, 5 negative triangles
229: dt=0.9900, 1 negative triangles
writing spherical brain to ../surf/rh.sphere
spherical transformation took 1.16 hours
mris_sphere utimesec    4069.620370
mris_sphere stimesec    13.309574
mris_sphere ru_maxrss   268988
mris_sphere ru_ixrss    0
mris_sphere ru_idrss    0
mris_sphere ru_isrss    0
mris_sphere ru_minflt   8116558
mris_sphere ru_majflt   0
mris_sphere ru_nswap    0
mris_sphere ru_inblock  0
mris_sphere ru_oublock  10720
mris_sphere ru_msgsnd   0
mris_sphere ru_msgrcv   0
mris_sphere ru_nsignals 0
mris_sphere ru_nvcsw    35
mris_sphere ru_nivcsw   102703
FSRUNTIME@ mris_sphere  1.1622 hours 1 threads
#--------------------------------------------
#@# Surf Reg lh Tue Jan 14 23:46:11 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_register -curv -rusage /study2/emowrap/data/freesurfer/subjects/066/touch/rusage.mris_register.lh.dat ../surf/lh.sphere /apps/x86_64_sci7/freesurfer-latest/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/lh.sphere.reg

using smoothwm curvature for final alignment

cwd /study2/emowrap/data/freesurfer/subjects/066/scripts
cmdline mris_register -curv -rusage /study2/emowrap/data/freesurfer/subjects/066/touch/rusage.mris_register.lh.dat ../surf/lh.sphere /apps/x86_64_sci7/freesurfer-latest/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/lh.sphere.reg

0 inflated.H
1 sulc
2 smoothwm (computed)
$Id: mris_register.c,v 1.63 2016/01/20 23:43:04 greve Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading surface from ../surf/lh.sphere...
reading template parameterization from /apps/x86_64_sci7/freesurfer-latest/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif...
MRISregister() -------
max_passes = 4
min_degrees = 0.500000
max_degrees = 64.000000
nangles = 8
tol=5.0e-01, sigma=0.0, host=c133., nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=1.000, l_dist=5.000
using quadratic fit line minimization
complete_dist_mat 0
rms 0
smooth_averages 0
remove_neg 0
ico_order 0
which_surface 0
target_radius 0.000000
nfields 0
scale 0.000000
desired_rms_height -1.000000
momentum 0.950000
nbhd_size -10
max_nbrs 10
niterations 25
nsurfaces 0
SURFACES 3
flags 16 (10)
use curv 16
no sulc 0
no rigid align 0
mris->nsize 1
mris->hemisphere 0
randomSeed 0

tol=5.0e-01, sigma=0.0, host=c133., nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=1.000, l_dist=5.000
using quadratic fit line minimization
--------------------
1 Reading lh.sulc
curvature mean = -0.000, std = 5.595
curvature mean = 0.047, std = 0.818
curvature mean = 0.028, std = 0.863
Starting MRISrigidBodyAlignGlobal()
  d=64.00 min @ (16.00, 0.00, 0.00) sse = 382403.4, tmin=1.4876
  d=32.00 min @ (-8.00, -8.00, 8.00) sse = 275551.8, tmin=2.9985
  d=16.00 min @ (4.00, 0.00, 0.00) sse = 263680.0, tmin=4.5305
  d=8.00 min @ (0.00, 2.00, 0.00) sse = 263675.0, tmin=6.0758
  d=4.00 min @ (0.00, -1.00, 0.00) sse = 260635.3, tmin=7.6238
  d=2.00 min @ (0.00, 0.00, -0.50) sse = 260504.1, tmin=9.1591
  d=1.00 min @ (-0.50, -0.25, 0.25) sse = 260313.1, tmin=10.6978
  d=0.50 min @ (0.12, 0.12, 0.00) sse = 260275.2, tmin=12.2406
tol=1.0e+00, sigma=0.5, host=c133., nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=0.050, l_spring=0.500, l_dist=5.000
using quadratic fit line minimization
MRISrigidBodyAlignGlobal() done  12.24 min
curvature mean = 0.001, std = 0.824
curvature mean = 0.010, std = 0.943
curvature mean = -0.007, std = 0.832
curvature mean = 0.003, std = 0.975
curvature mean = -0.008, std = 0.834
curvature mean = 0.001, std = 0.989
2 Reading smoothwm
curvature mean = -0.038, std = 0.457
curvature mean = 0.038, std = 0.248
curvature mean = 0.057, std = 0.217
curvature mean = 0.030, std = 0.310
curvature mean = 0.033, std = 0.334
curvature mean = 0.028, std = 0.337
curvature mean = 0.019, std = 0.430
curvature mean = 0.028, std = 0.349
curvature mean = 0.007, std = 0.521
MRISregister() return, current seed 0
-01: dt=0.0000, 346 negative triangles
126: dt=0.9900, 346 negative triangles
expanding nbhd size to 1
127: dt=0.9900, 386 negative triangles
128: dt=0.9900, 312 negative triangles
129: dt=0.9900, 299 negative triangles
130: dt=0.9900, 300 negative triangles
131: dt=0.9900, 280 negative triangles
132: dt=0.9900, 279 negative triangles
133: dt=0.9900, 270 negative triangles
134: dt=0.9900, 255 negative triangles
135: dt=0.9900, 236 negative triangles
136: dt=0.9900, 224 negative triangles
137: dt=0.9900, 224 negative triangles
138: dt=0.9900, 213 negative triangles
139: dt=0.9900, 216 negative triangles
140: dt=0.9900, 219 negative triangles
141: dt=0.9900, 206 negative triangles
142: dt=0.9900, 192 negative triangles
143: dt=0.9900, 186 negative triangles
144: dt=0.9900, 185 negative triangles
145: dt=0.9900, 190 negative triangles
146: dt=0.9900, 186 negative triangles
147: dt=0.9900, 188 negative triangles
148: dt=0.9900, 187 negative triangles
149: dt=0.9900, 183 negative triangles
150: dt=0.9900, 176 negative triangles
151: dt=0.9900, 170 negative triangles
152: dt=0.9900, 164 negative triangles
153: dt=0.9900, 160 negative triangles
154: dt=0.9900, 163 negative triangles
155: dt=0.9900, 157 negative triangles
156: dt=0.9900, 163 negative triangles
157: dt=0.9900, 155 negative triangles
158: dt=0.9900, 151 negative triangles
159: dt=0.9900, 147 negative triangles
160: dt=0.9900, 142 negative triangles
161: dt=0.9900, 141 negative triangles
162: dt=0.9900, 135 negative triangles
163: dt=0.9900, 143 negative triangles
164: dt=0.9900, 136 negative triangles
165: dt=0.9900, 131 negative triangles
166: dt=0.9900, 127 negative triangles
167: dt=0.9900, 126 negative triangles
168: dt=0.9900, 121 negative triangles
169: dt=0.9900, 126 negative triangles
170: dt=0.9900, 125 negative triangles
171: dt=0.9900, 119 negative triangles
172: dt=0.9900, 115 negative triangles
173: dt=0.9900, 115 negative triangles
174: dt=0.9900, 110 negative triangles
175: dt=0.9900, 109 negative triangles
176: dt=0.9900, 104 negative triangles
177: dt=0.9900, 108 negative triangles
178: dt=0.9900, 106 negative triangles
179: dt=0.9900, 100 negative triangles
180: dt=0.9900, 103 negative triangles
181: dt=0.9900, 104 negative triangles
182: dt=0.9900, 104 negative triangles
183: dt=0.9900, 95 negative triangles
184: dt=0.9900, 88 negative triangles
185: dt=0.9900, 89 negative triangles
186: dt=0.9900, 92 negative triangles
187: dt=0.9900, 94 negative triangles
188: dt=0.9900, 93 negative triangles
189: dt=0.9900, 84 negative triangles
190: dt=0.9900, 83 negative triangles
191: dt=0.9900, 80 negative triangles
192: dt=0.9900, 80 negative triangles
193: dt=0.9900, 82 negative triangles
194: dt=0.9900, 85 negative triangles
195: dt=0.9900, 82 negative triangles
196: dt=0.9900, 76 negative triangles
197: dt=0.9900, 75 negative triangles
198: dt=0.9900, 72 negative triangles
199: dt=0.9900, 75 negative triangles
200: dt=0.9900, 70 negative triangles
201: dt=0.9900, 66 negative triangles
202: dt=0.9900, 67 negative triangles
203: dt=0.9900, 68 negative triangles
204: dt=0.9900, 60 negative triangles
205: dt=0.9900, 61 negative triangles
206: dt=0.9900, 59 negative triangles
207: dt=0.9900, 58 negative triangles
208: dt=0.9900, 52 negative triangles
209: dt=0.9900, 51 negative triangles
210: dt=0.9900, 53 negative triangles
211: dt=0.9900, 45 negative triangles
212: dt=0.9900, 44 negative triangles
213: dt=0.9900, 43 negative triangles
214: dt=0.9900, 41 negative triangles
215: dt=0.9900, 40 negative triangles
216: dt=0.9900, 34 negative triangles
217: dt=0.9900, 31 negative triangles
218: dt=0.9900, 28 negative triangles
219: dt=0.9900, 30 negative triangles
220: dt=0.9900, 28 negative triangles
221: dt=0.9900, 25 negative triangles
222: dt=0.9900, 22 negative triangles
223: dt=0.9900, 20 negative triangles
224: dt=0.9900, 19 negative triangles
225: dt=0.9900, 13 negative triangles
226: dt=0.9900, 14 negative triangles
227: dt=0.9900, 12 negative triangles
228: dt=0.9900, 13 negative triangles
229: dt=0.9900, 10 negative triangles
230: dt=0.9900, 14 negative triangles
231: dt=0.9900, 9 negative triangles
232: dt=0.9900, 8 negative triangles
233: dt=0.9900, 10 negative triangles
234: dt=0.9900, 7 negative triangles
235: dt=0.9900, 8 negative triangles
236: dt=0.9900, 3 negative triangles
237: dt=0.9900, 4 negative triangles
238: dt=0.9900, 4 negative triangles
239: dt=0.9900, 2 negative triangles
240: dt=0.9900, 2 negative triangles
241: dt=0.9900, 2 negative triangles
242: dt=0.9900, 1 negative triangles
writing registered surface to ../surf/lh.sphere.reg...
registration took 1.53 hours
mris_register utimesec    5398.328663
mris_register stimesec    4.562184
mris_register ru_maxrss   240572
mris_register ru_ixrss    0
mris_register ru_idrss    0
mris_register ru_isrss    0
mris_register ru_minflt   2528572
mris_register ru_majflt   0
mris_register ru_nswap    0
mris_register ru_inblock  0
mris_register ru_oublock  10200
mris_register ru_msgsnd   0
mris_register ru_msgrcv   0
mris_register ru_nsignals 0
mris_register ru_nvcsw    52
mris_register ru_nivcsw   119795
FSRUNTIME@ mris_register  1.5338 hours 1 threads
#--------------------------------------------
#@# Surf Reg rh Wed Jan 15 01:18:13 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_register -curv -rusage /study2/emowrap/data/freesurfer/subjects/066/touch/rusage.mris_register.rh.dat ../surf/rh.sphere /apps/x86_64_sci7/freesurfer-latest/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/rh.sphere.reg

using smoothwm curvature for final alignment

cwd /study2/emowrap/data/freesurfer/subjects/066/scripts
cmdline mris_register -curv -rusage /study2/emowrap/data/freesurfer/subjects/066/touch/rusage.mris_register.rh.dat ../surf/rh.sphere /apps/x86_64_sci7/freesurfer-latest/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/rh.sphere.reg

0 inflated.H
1 sulc
2 smoothwm (computed)
$Id: mris_register.c,v 1.63 2016/01/20 23:43:04 greve Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading surface from ../surf/rh.sphere...
reading template parameterization from /apps/x86_64_sci7/freesurfer-latest/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif...
MRISregister() -------
max_passes = 4
min_degrees = 0.500000
max_degrees = 64.000000
nangles = 8
tol=5.0e-01, sigma=0.0, host=c133., nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=1.000, l_dist=5.000
using quadratic fit line minimization
complete_dist_mat 0
rms 0
smooth_averages 0
remove_neg 0
ico_order 0
which_surface 0
target_radius 0.000000
nfields 0
scale 0.000000
desired_rms_height -1.000000
momentum 0.950000
nbhd_size -10
max_nbrs 10
niterations 25
nsurfaces 0
SURFACES 3
flags 16 (10)
use curv 16
no sulc 0
no rigid align 0
mris->nsize 1
mris->hemisphere 1
randomSeed 0

tol=5.0e-01, sigma=0.0, host=c133., nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=1.000, l_dist=5.000
using quadratic fit line minimization
--------------------
1 Reading rh.sulc
curvature mean = -0.000, std = 5.568
curvature mean = 0.034, std = 0.813
curvature mean = 0.027, std = 0.853
Starting MRISrigidBodyAlignGlobal()
  d=64.00 min @ (16.00, -16.00, 0.00) sse = 391424.5, tmin=1.5534
  d=32.00 min @ (0.00, 8.00, 0.00) sse = 288359.2, tmin=3.1338
  d=16.00 min @ (-4.00, 0.00, 0.00) sse = 270879.7, tmin=4.7121
  d=8.00 min @ (0.00, -2.00, 0.00) sse = 269236.1, tmin=6.3809
  d=4.00 min @ (1.00, 1.00, 1.00) sse = 266332.7, tmin=7.9490
  d=2.00 min @ (-0.50, 0.00, -0.50) sse = 265790.0, tmin=9.5341
  d=1.00 min @ (0.25, 0.00, 0.00) sse = 265719.6, tmin=11.1289
  d=0.50 min @ (0.00, 0.12, 0.12) sse = 265681.1, tmin=12.7260
tol=1.0e+00, sigma=0.5, host=c133., nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=0.050, l_spring=0.500, l_dist=5.000
using quadratic fit line minimization
MRISrigidBodyAlignGlobal() done  12.73 min
curvature mean = -0.002, std = 0.818
curvature mean = 0.009, std = 0.945
curvature mean = -0.009, std = 0.824
curvature mean = 0.003, std = 0.978
curvature mean = -0.011, std = 0.824
curvature mean = 0.000, std = 0.991
2 Reading smoothwm
curvature mean = -0.035, std = 0.353
curvature mean = 0.032, std = 0.242
curvature mean = 0.066, std = 0.284
curvature mean = 0.026, std = 0.300
curvature mean = 0.038, std = 0.432
curvature mean = 0.025, std = 0.327
curvature mean = 0.022, std = 0.555
curvature mean = 0.025, std = 0.338
curvature mean = 0.008, std = 0.665
MRISregister() return, current seed 0
-01: dt=0.0000, 107 negative triangles
120: dt=0.9900, 107 negative triangles
expanding nbhd size to 1
121: dt=0.9900, 133 negative triangles
122: dt=0.9900, 91 negative triangles
123: dt=0.9900, 76 negative triangles
124: dt=0.9900, 75 negative triangles
125: dt=0.9900, 62 negative triangles
126: dt=0.9900, 53 negative triangles
127: dt=0.9900, 42 negative triangles
128: dt=0.9900, 43 negative triangles
129: dt=0.9900, 31 negative triangles
130: dt=0.9900, 35 negative triangles
131: dt=0.9900, 34 negative triangles
132: dt=0.9900, 24 negative triangles
133: dt=0.9900, 19 negative triangles
134: dt=0.9900, 21 negative triangles
135: dt=0.9900, 20 negative triangles
136: dt=0.9900, 15 negative triangles
137: dt=0.9900, 14 negative triangles
138: dt=0.9900, 12 negative triangles
139: dt=0.9900, 11 negative triangles
140: dt=0.9900, 10 negative triangles
141: dt=0.9900, 12 negative triangles
142: dt=0.9900, 11 negative triangles
143: dt=0.9900, 10 negative triangles
144: dt=0.9900, 9 negative triangles
145: dt=0.9900, 10 negative triangles
146: dt=0.9900, 9 negative triangles
147: dt=0.9900, 6 negative triangles
148: dt=0.9900, 8 negative triangles
149: dt=0.9900, 7 negative triangles
150: dt=0.9900, 6 negative triangles
151: dt=0.9900, 4 negative triangles
152: dt=0.9900, 6 negative triangles
153: dt=0.9900, 6 negative triangles
154: dt=0.9900, 4 negative triangles
155: dt=0.9900, 5 negative triangles
156: dt=0.9900, 5 negative triangles
157: dt=0.9900, 3 negative triangles
158: dt=0.9900, 3 negative triangles
159: dt=0.9900, 3 negative triangles
160: dt=0.9900, 1 negative triangles
161: dt=0.9900, 1 negative triangles
162: dt=0.9900, 1 negative triangles
163: dt=0.9900, 1 negative triangles
164: dt=0.9900, 1 negative triangles
165: dt=0.9900, 1 negative triangles
166: dt=0.9900, 1 negative triangles
167: dt=0.9900, 1 negative triangles
168: dt=0.9900, 1 negative triangles
169: dt=0.9900, 1 negative triangles
170: dt=0.9405, 1 negative triangles
171: dt=0.9405, 1 negative triangles
172: dt=0.9405, 1 negative triangles
173: dt=0.9405, 1 negative triangles
174: dt=0.9405, 1 negative triangles
175: dt=0.9405, 1 negative triangles
176: dt=0.9405, 1 negative triangles
177: dt=0.9405, 1 negative triangles
178: dt=0.9405, 1 negative triangles
179: dt=0.9405, 1 negative triangles
180: dt=0.8935, 1 negative triangles
181: dt=0.8935, 1 negative triangles
182: dt=0.8935, 1 negative triangles
183: dt=0.8935, 1 negative triangles
184: dt=0.8935, 1 negative triangles
185: dt=0.8935, 1 negative triangles
186: dt=0.8935, 1 negative triangles
187: dt=0.8935, 1 negative triangles
188: dt=0.8935, 1 negative triangles
189: dt=0.8935, 1 negative triangles
190: dt=0.8488, 1 negative triangles
191: dt=0.8488, 1 negative triangles
192: dt=0.8488, 1 negative triangles
193: dt=0.8488, 1 negative triangles
194: dt=0.8488, 1 negative triangles
195: dt=0.8488, 1 negative triangles
196: dt=0.8488, 1 negative triangles
197: dt=0.8488, 1 negative triangles
198: dt=0.8488, 1 negative triangles
199: dt=0.8488, 1 negative triangles
200: dt=0.8064, 1 negative triangles
201: dt=0.8064, 1 negative triangles
202: dt=0.8064, 1 negative triangles
203: dt=0.8064, 1 negative triangles
204: dt=0.8064, 1 negative triangles
205: dt=0.8064, 1 negative triangles
206: dt=0.8064, 1 negative triangles
207: dt=0.8064, 1 negative triangles
208: dt=0.8064, 1 negative triangles
209: dt=0.8064, 1 negative triangles
210: dt=0.7660, 1 negative triangles
211: dt=0.7660, 1 negative triangles
212: dt=0.7660, 1 negative triangles
213: dt=0.7660, 1 negative triangles
214: dt=0.7660, 1 negative triangles
215: dt=0.7660, 1 negative triangles
216: dt=0.7660, 1 negative triangles
217: dt=0.7660, 1 negative triangles
218: dt=0.7660, 1 negative triangles
219: dt=0.7660, 1 negative triangles
220: dt=0.7277, 1 negative triangles
221: dt=0.7277, 1 negative triangles
222: dt=0.7277, 1 negative triangles
223: dt=0.7277, 1 negative triangles
224: dt=0.7277, 1 negative triangles
225: dt=0.7277, 1 negative triangles
226: dt=0.7277, 1 negative triangles
227: dt=0.7277, 1 negative triangles
228: dt=0.7277, 1 negative triangles
229: dt=0.7277, 1 negative triangles
230: dt=0.6914, 1 negative triangles
231: dt=0.6914, 1 negative triangles
232: dt=0.6914, 1 negative triangles
233: dt=0.6914, 1 negative triangles
234: dt=0.6914, 1 negative triangles
235: dt=0.6914, 1 negative triangles
236: dt=0.6914, 1 negative triangles
237: dt=0.6914, 1 negative triangles
238: dt=0.6914, 1 negative triangles
239: dt=0.6914, 1 negative triangles
240: dt=0.6568, 1 negative triangles
241: dt=0.6568, 1 negative triangles
242: dt=0.6568, 1 negative triangles
243: dt=0.6568, 1 negative triangles
244: dt=0.6568, 1 negative triangles
245: dt=0.6568, 1 negative triangles
246: dt=0.6568, 1 negative triangles
247: dt=0.6568, 1 negative triangles
248: dt=0.6568, 1 negative triangles
249: dt=0.6568, 1 negative triangles
250: dt=0.6239, 1 negative triangles
251: dt=0.6239, 1 negative triangles
252: dt=0.6239, 1 negative triangles
253: dt=0.6239, 1 negative triangles
254: dt=0.6239, 1 negative triangles
255: dt=0.6239, 1 negative triangles
256: dt=0.6239, 1 negative triangles
257: dt=0.6239, 1 negative triangles
258: dt=0.6239, 1 negative triangles
259: dt=0.6239, 1 negative triangles
260: dt=0.5927, 1 negative triangles
261: dt=0.5927, 1 negative triangles
262: dt=0.5927, 1 negative triangles
263: dt=0.5927, 1 negative triangles
264: dt=0.5927, 1 negative triangles
265: dt=0.5927, 1 negative triangles
266: dt=0.5927, 1 negative triangles
267: dt=0.5927, 1 negative triangles
268: dt=0.5927, 1 negative triangles
269: dt=0.5927, 1 negative triangles
270: dt=0.5631, 1 negative triangles
271: dt=0.5631, 1 negative triangles
272: dt=0.5631, 1 negative triangles
273: dt=0.5631, 1 negative triangles
274: dt=0.5631, 1 negative triangles
275: dt=0.5631, 1 negative triangles
276: dt=0.5631, 1 negative triangles
277: dt=0.5631, 1 negative triangles
278: dt=0.5631, 1 negative triangles
279: dt=0.5631, 1 negative triangles
280: dt=0.5350, 1 negative triangles
281: dt=0.5350, 1 negative triangles
282: dt=0.5350, 1 negative triangles
283: dt=0.5350, 1 negative triangles
284: dt=0.5350, 1 negative triangles
285: dt=0.5350, 1 negative triangles
286: dt=0.5350, 1 negative triangles
287: dt=0.5350, 1 negative triangles
288: dt=0.5350, 1 negative triangles
289: dt=0.5350, 1 negative triangles
290: dt=0.5082, 1 negative triangles
291: dt=0.5082, 1 negative triangles
292: dt=0.5082, 1 negative triangles
293: dt=0.5082, 1 negative triangles
294: dt=0.5082, 1 negative triangles
295: dt=0.5082, 1 negative triangles
296: dt=0.5082, 1 negative triangles
297: dt=0.5082, 1 negative triangles
298: dt=0.5082, 1 negative triangles
299: dt=0.5082, 1 negative triangles
300: dt=0.4828, 1 negative triangles
301: dt=0.4828, 1 negative triangles
302: dt=0.4828, 1 negative triangles
303: dt=0.4828, 1 negative triangles
304: dt=0.4828, 1 negative triangles
305: dt=0.4828, 1 negative triangles
306: dt=0.4828, 1 negative triangles
307: dt=0.4828, 1 negative triangles
308: dt=0.4828, 1 negative triangles
309: dt=0.4828, 1 negative triangles
310: dt=0.4587, 1 negative triangles
311: dt=0.4587, 1 negative triangles
312: dt=0.4587, 1 negative triangles
313: dt=0.4587, 1 negative triangles
314: dt=0.4587, 1 negative triangles
315: dt=0.4587, 1 negative triangles
316: dt=0.4587, 1 negative triangles
317: dt=0.4587, 1 negative triangles
318: dt=0.4587, 1 negative triangles
319: dt=0.4587, 1 negative triangles
320: dt=0.4357, 1 negative triangles
321: dt=0.4357, 1 negative triangles
322: dt=0.4357, 1 negative triangles
323: dt=0.4357, 1 negative triangles
324: dt=0.4357, 1 negative triangles
325: dt=0.4357, 1 negative triangles
326: dt=0.4357, 1 negative triangles
327: dt=0.4357, 1 negative triangles
328: dt=0.4357, 1 negative triangles
329: dt=0.4357, 1 negative triangles
330: dt=0.4139, 1 negative triangles
331: dt=0.4139, 1 negative triangles
332: dt=0.4139, 1 negative triangles
333: dt=0.4139, 1 negative triangles
334: dt=0.4139, 1 negative triangles
335: dt=0.4139, 1 negative triangles
336: dt=0.4139, 1 negative triangles
337: dt=0.4139, 1 negative triangles
338: dt=0.4139, 1 negative triangles
339: dt=0.4139, 1 negative triangles
340: dt=0.3932, 1 negative triangles
341: dt=0.3932, 1 negative triangles
342: dt=0.3932, 1 negative triangles
343: dt=0.3932, 1 negative triangles
344: dt=0.3932, 1 negative triangles
345: dt=0.3932, 1 negative triangles
346: dt=0.3932, 1 negative triangles
347: dt=0.3932, 1 negative triangles
348: dt=0.3932, 1 negative triangles
349: dt=0.3932, 1 negative triangles
350: dt=0.3736, 1 negative triangles
351: dt=0.3736, 1 negative triangles
352: dt=0.3736, 1 negative triangles
353: dt=0.3736, 1 negative triangles
354: dt=0.3736, 1 negative triangles
355: dt=0.3736, 1 negative triangles
356: dt=0.3736, 1 negative triangles
357: dt=0.3736, 1 negative triangles
358: dt=0.3736, 1 negative triangles
359: dt=0.3736, 1 negative triangles
360: dt=0.3549, 1 negative triangles
361: dt=0.3549, 1 negative triangles
362: dt=0.3549, 1 negative triangles
363: dt=0.3549, 1 negative triangles
364: dt=0.3549, 1 negative triangles
365: dt=0.3549, 1 negative triangles
366: dt=0.3549, 1 negative triangles
367: dt=0.3549, 1 negative triangles
368: dt=0.3549, 1 negative triangles
369: dt=0.3549, 1 negative triangles
370: dt=0.3372, 1 negative triangles
371: dt=0.3372, 1 negative triangles
372: dt=0.3372, 1 negative triangles
373: dt=0.3372, 1 negative triangles
374: dt=0.3372, 1 negative triangles
375: dt=0.3372, 1 negative triangles
376: dt=0.3372, 1 negative triangles
377: dt=0.3372, 1 negative triangles
378: dt=0.3372, 1 negative triangles
379: dt=0.3372, 1 negative triangles
380: dt=0.3203, 1 negative triangles
381: dt=0.3203, 1 negative triangles
382: dt=0.3203, 1 negative triangles
383: dt=0.3203, 1 negative triangles
384: dt=0.3203, 1 negative triangles
385: dt=0.3203, 1 negative triangles
386: dt=0.3203, 1 negative triangles
387: dt=0.3203, 1 negative triangles
388: dt=0.3203, 1 negative triangles
389: dt=0.3203, 1 negative triangles
390: dt=0.3043, 1 negative triangles
391: dt=0.3043, 1 negative triangles
392: dt=0.3043, 1 negative triangles
393: dt=0.3043, 1 negative triangles
394: dt=0.3043, 1 negative triangles
395: dt=0.3043, 1 negative triangles
396: dt=0.3043, 1 negative triangles
397: dt=0.3043, 1 negative triangles
398: dt=0.3043, 1 negative triangles
399: dt=0.3043, 1 negative triangles
400: dt=0.2891, 1 negative triangles
401: dt=0.2891, 1 negative triangles
402: dt=0.2891, 1 negative triangles
403: dt=0.2891, 1 negative triangles
404: dt=0.2891, 1 negative triangles
405: dt=0.2891, 1 negative triangles
406: dt=0.2891, 1 negative triangles
407: dt=0.2891, 1 negative triangles
408: dt=0.2891, 1 negative triangles
409: dt=0.2891, 1 negative triangles
410: dt=0.2746, 1 negative triangles
411: dt=0.2746, 1 negative triangles
412: dt=0.2746, 1 negative triangles
413: dt=0.2746, 1 negative triangles
414: dt=0.2746, 1 negative triangles
415: dt=0.2746, 1 negative triangles
416: dt=0.2746, 1 negative triangles
417: dt=0.2746, 1 negative triangles
418: dt=0.2746, 1 negative triangles
419: dt=0.2746, 1 negative triangles
420: dt=0.2609, 1 negative triangles
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422: dt=0.2609, 1 negative triangles
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998: dt=0.0140, 1 negative triangles
999: dt=0.0140, 1 negative triangles
1000: dt=0.0133, 1 negative triangles
1001: dt=0.0133, 1 negative triangles
1002: dt=0.0133, 1 negative triangles
1003: dt=0.0133, 1 negative triangles
1004: dt=0.0133, 1 negative triangles
1005: dt=0.0133, 1 negative triangles
1006: dt=0.0133, 1 negative triangles
1007: dt=0.0133, 1 negative triangles
1008: dt=0.0133, 1 negative triangles
1009: dt=0.0133, 1 negative triangles
1010: dt=0.0127, 1 negative triangles
1011: dt=0.0127, 1 negative triangles
1012: dt=0.0127, 1 negative triangles
1013: dt=0.0127, 1 negative triangles
1014: dt=0.0127, 1 negative triangles
1015: dt=0.0127, 1 negative triangles
1016: dt=0.0127, 1 negative triangles
1017: dt=0.0127, 1 negative triangles
1018: dt=0.0127, 1 negative triangles
1019: dt=0.0127, 1 negative triangles
1020: dt=0.0120, 1 negative triangles
1021: dt=0.0120, 1 negative triangles
1022: dt=0.0120, 1 negative triangles
1023: dt=0.0120, 1 negative triangles
1024: dt=0.0120, 1 negative triangles
1025: dt=0.0120, 1 negative triangles
1026: dt=0.0120, 1 negative triangles
1027: dt=0.0120, 1 negative triangles
1028: dt=0.0120, 1 negative triangles
1029: dt=0.0120, 1 negative triangles
1030: dt=0.0114, 1 negative triangles
1031: dt=0.0114, 1 negative triangles
1032: dt=0.0114, 1 negative triangles
1033: dt=0.0114, 1 negative triangles
1034: dt=0.0114, 1 negative triangles
1035: dt=0.0114, 1 negative triangles
1036: dt=0.0114, 1 negative triangles
1037: dt=0.0114, 1 negative triangles
1038: dt=0.0114, 1 negative triangles
1039: dt=0.0114, 1 negative triangles
1040: dt=0.0108, 1 negative triangles
1041: dt=0.0108, 1 negative triangles
1042: dt=0.0108, 1 negative triangles
1043: dt=0.0108, 1 negative triangles
1044: dt=0.0108, 1 negative triangles
1045: dt=0.0108, 1 negative triangles
1046: dt=0.0108, 1 negative triangles
1047: dt=0.0108, 1 negative triangles
1048: dt=0.0108, 1 negative triangles
1049: dt=0.0108, 1 negative triangles
1050: dt=0.0103, 1 negative triangles
1051: dt=0.0103, 1 negative triangles
1052: dt=0.0103, 1 negative triangles
1053: dt=0.0103, 1 negative triangles
1054: dt=0.0103, 1 negative triangles
1055: dt=0.0103, 1 negative triangles
1056: dt=0.0103, 1 negative triangles
1057: dt=0.0103, 1 negative triangles
1058: dt=0.0103, 1 negative triangles
1059: dt=0.0103, 1 negative triangles
1060: dt=0.0098, 1 negative triangles
1061: dt=0.0098, 1 negative triangles
1062: dt=0.0098, 1 negative triangles
1063: dt=0.0098, 1 negative triangles
1064: dt=0.0098, 1 negative triangles
1065: dt=0.0098, 1 negative triangles
1066: dt=0.0098, 1 negative triangles
1067: dt=0.0098, 1 negative triangles
1068: dt=0.0098, 1 negative triangles
1069: dt=0.0098, 1 negative triangles
1070: dt=0.0098, 1 negative triangles
1071: dt=0.0098, 1 negative triangles
1072: dt=0.0098, 1 negative triangles
1073: dt=0.0098, 1 negative triangles
1074: dt=0.0098, 1 negative triangles
1075: dt=0.0098, 1 negative triangles
1076: dt=0.0098, 1 negative triangles
1077: dt=0.0098, 1 negative triangles
1078: dt=0.0098, 1 negative triangles
1079: dt=0.0098, 1 negative triangles
1080: dt=0.0098, 1 negative triangles
1081: dt=0.0098, 1 negative triangles
1082: dt=0.0098, 1 negative triangles
1083: dt=0.0098, 1 negative triangles
1084: dt=0.0098, 1 negative triangles
1085: dt=0.0098, 1 negative triangles
1086: dt=0.0098, 1 negative triangles
1087: dt=0.0098, 1 negative triangles
1088: dt=0.0098, 1 negative triangles
1089: dt=0.0098, 1 negative triangles
1090: dt=0.0098, 1 negative triangles
1091: dt=0.0098, 1 negative triangles
1092: dt=0.0098, 1 negative triangles
1093: dt=0.0098, 1 negative triangles
1094: dt=0.0098, 1 negative triangles
1095: dt=0.0098, 1 negative triangles
1096: dt=0.0098, 1 negative triangles
1097: dt=0.0098, 1 negative triangles
1098: dt=0.0098, 1 negative triangles
1099: dt=0.0098, 1 negative triangles
1100: dt=0.0098, 1 negative triangles
1101: dt=0.0098, 1 negative triangles
1102: dt=0.0098, 1 negative triangles
1103: dt=0.0098, 1 negative triangles
1104: dt=0.0098, 1 negative triangles
1105: dt=0.0098, 1 negative triangles
1106: dt=0.0098, 1 negative triangles
1107: dt=0.0098, 1 negative triangles
1108: dt=0.0098, 1 negative triangles
1109: dt=0.0098, 1 negative triangles
1110: dt=0.0098, 1 negative triangles
1111: dt=0.0098, 1 negative triangles
1112: dt=0.0098, 1 negative triangles
1113: dt=0.0098, 1 negative triangles
1114: dt=0.0098, 1 negative triangles
1115: dt=0.0098, 1 negative triangles
1116: dt=0.0098, 1 negative triangles
1117: dt=0.0098, 1 negative triangles
1118: dt=0.0098, 1 negative triangles
1119: dt=0.0098, 1 negative triangles
writing registered surface to ../surf/rh.sphere.reg...
1120: dt=0.0098, 1 negative triangles
1121: 1 negative triangles
registration took 1.90 hours
mris_register utimesec    6715.963939
mris_register stimesec    5.952302
mris_register ru_maxrss   248832
mris_register ru_ixrss    0
mris_register ru_idrss    0
mris_register ru_isrss    0
mris_register ru_minflt   3549148
mris_register ru_majflt   0
mris_register ru_nswap    0
mris_register ru_inblock  0
mris_register ru_oublock  10720
mris_register ru_msgsnd   0
mris_register ru_msgrcv   0
mris_register ru_nsignals 0
mris_register ru_nvcsw    44
mris_register ru_nivcsw   158860
FSRUNTIME@ mris_register  1.9041 hours 1 threads
#--------------------------------------------
#@# Jacobian white lh Wed Jan 15 03:12:28 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_jacobian ../surf/lh.white.preaparc ../surf/lh.sphere.reg ../surf/lh.jacobian_white

reading surface from ../surf/lh.white.preaparc...
writing curvature file ../surf/lh.jacobian_white
#--------------------------------------------
#@# Jacobian white rh Wed Jan 15 03:12:32 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_jacobian ../surf/rh.white.preaparc ../surf/rh.sphere.reg ../surf/rh.jacobian_white

reading surface from ../surf/rh.white.preaparc...
writing curvature file ../surf/rh.jacobian_white
#--------------------------------------------
#@# AvgCurv lh Wed Jan 15 03:12:36 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mrisp_paint -a 5 /apps/x86_64_sci7/freesurfer-latest/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif#6 ../surf/lh.sphere.reg ../surf/lh.avg_curv

averaging curvature patterns 5 times...
reading surface from ../surf/lh.sphere.reg...
reading template parameterization from /apps/x86_64_sci7/freesurfer-latest/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif...
writing curvature file to ../surf/lh.avg_curv...
#--------------------------------------------
#@# AvgCurv rh Wed Jan 15 03:12:39 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mrisp_paint -a 5 /apps/x86_64_sci7/freesurfer-latest/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif#6 ../surf/rh.sphere.reg ../surf/rh.avg_curv

averaging curvature patterns 5 times...
reading surface from ../surf/rh.sphere.reg...
reading template parameterization from /apps/x86_64_sci7/freesurfer-latest/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif...
writing curvature file to ../surf/rh.avg_curv...
#-----------------------------------------
#@# Cortical Parc lh Wed Jan 15 03:12:42 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 066 lh ../surf/lh.sphere.reg /apps/x86_64_sci7/freesurfer-latest/average/lh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.annot

setting seed for random number generator to 1234
using ../mri/aseg.presurf.mgz aseg volume to correct midline
$Id: mris_ca_label.c,v 1.37 2014/02/04 17:46:42 fischl Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading atlas from /apps/x86_64_sci7/freesurfer-latest/average/lh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs...
reading color table from GCSA file....
average std = 0.8   using min determinant for regularization = 0.006
0 singular and 342 ill-conditioned covariance matrices regularized
input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature
labeling surface...
1444 labels changed using aseg
relabeling using gibbs priors...
000:   3219 changed, 144925 examined...
001:    760 changed, 13632 examined...
002:    186 changed, 4187 examined...
003:     66 changed, 1096 examined...
004:     35 changed, 388 examined...
005:     11 changed, 171 examined...
006:      9 changed, 66 examined...
007:      0 changed, 49 examined...
264 labels changed using aseg
000: 124 total segments, 63 labels (523 vertices) changed
001: 62 total segments, 2 labels (2 vertices) changed
002: 60 total segments, 0 labels (0 vertices) changed
10 filter iterations complete (10 requested, 7 changed)
rationalizing unknown annotations with cortex label
relabeling unknown label...
relabeling corpuscallosum label...
2055 vertices marked for relabeling...
2055 labels changed in reclassification.
writing output to ../label/lh.aparc.annot...
classification took 0 minutes and 27 seconds.
#-----------------------------------------
#@# Cortical Parc rh Wed Jan 15 03:13:10 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 066 rh ../surf/rh.sphere.reg /apps/x86_64_sci7/freesurfer-latest/average/rh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/rh.aparc.annot

setting seed for random number generator to 1234
using ../mri/aseg.presurf.mgz aseg volume to correct midline
$Id: mris_ca_label.c,v 1.37 2014/02/04 17:46:42 fischl Exp $
  $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading atlas from /apps/x86_64_sci7/freesurfer-latest/average/rh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs...
reading color table from GCSA file....
average std = 0.7   using min determinant for regularization = 0.004
0 singular and 309 ill-conditioned covariance matrices regularized
input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature
labeling surface...
1744 labels changed using aseg
relabeling using gibbs priors...
000:   3018 changed, 152355 examined...
001:    720 changed, 12983 examined...
002:    191 changed, 4085 examined...
003:     62 changed, 1131 examined...
004:     26 changed, 369 examined...
005:     12 changed, 171 examined...
006:      5 changed, 62 examined...
007:      3 changed, 28 examined...
008:      2 changed, 22 examined...
009:      0 changed, 13 examined...
133 labels changed using aseg
000: 111 total segments, 74 labels (427 vertices) changed
001: 39 total segments, 2 labels (3 vertices) changed
002: 37 total segments, 0 labels (0 vertices) changed
10 filter iterations complete (10 requested, 9 changed)
rationalizing unknown annotations with cortex label
relabeling unknown label...
relabeling corpuscallosum label...
2380 vertices marked for relabeling...
2380 labels changed in reclassification.
writing output to ../label/rh.aparc.annot...
classification took 0 minutes and 28 seconds.
#--------------------------------------------
#@# Make Pial Surf lh Wed Jan 15 03:13:38 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 066 lh

using white.preaparc starting white location...
using white.preaparc starting pial locations...
using aseg volume ../mri/aseg.presurf to prevent surfaces crossing the midline
INFO: assuming MGZ format for volumes.
using brain.finalsurfs as T1 volume...
$Id: mris_make_surfaces.c,v 1.164.2.4 2016/12/13 22:26:32 zkaufman Exp $
$Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/filled.mgz...
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/brain.finalsurfs.mgz...
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/../mri/aseg.presurf.mgz...
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/wm.mgz...
32301 bright wm thresholded.
4673 bright non-wm voxels segmented.
reading original surface position from /study2/emowrap/data/freesurfer/subjects/066/surf/lh.orig...
computing class statistics...
border white:    294484 voxels (1.76%)
border gray      333423 voxels (1.99%)
WM (96.0): 96.5 +- 9.0 [70.0 --> 110.0]
GM (70.0) : 67.9 +- 12.6 [30.0 --> 110.0]
setting MIN_GRAY_AT_WHITE_BORDER to 53.4 (was 70)
setting MAX_BORDER_WHITE to 110.0 (was 105)
setting MIN_BORDER_WHITE to 66.0 (was 85)
setting MAX_CSF to 40.7 (was 40)
setting MAX_GRAY to 92.0 (was 95)
setting MAX_GRAY_AT_CSF_BORDER to 53.4 (was 75)
setting MIN_GRAY_AT_CSF_BORDER to 28.1 (was 40)
using class modes intead of means, discounting robust sigmas....
intensity peaks found at WM=101+-8.7,    GM=66+-10.4
mean inside = 90.3, mean outside = 70.4
smoothing surface for 5 iterations...
reading initial white vertex positions from white.preaparc...
reading colortable from annotation file...
colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
repositioning cortical surface to gray/white boundary
smoothing T1 volume with sigma = 2.000
vertex spacing 0.90 +- 0.33 (0.02-->13.54) (max @ vno 142514 --> 142515)
face area 0.33 +- 0.22 (0.00-->12.39)
mean absolute distance = 0.90 +- 1.12
4098 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
inhibiting deformation at non-cortical midline structures...
deleting segment 0 with 42 points - only 0.00% unknown
deleting segment 1 with 115 points - only 0.00% unknown
deleting segment 2 with 5 points - only 0.00% unknown
deleting segment 3 with 81 points - only 0.00% unknown
removing 1 vertex label from ripped group
removing 2 vertex label from ripped group
deleting segment 7 with 23 points - only 0.00% unknown
deleting segment 8 with 323 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 9 with 2 points - only 0.00% unknown
deleting segment 10 with 84 points - only 0.00% unknown
deleting segment 11 with 45 points - only 0.00% unknown
deleting segment 12 with 31 points - only 0.00% unknown
deleting segment 13 with 59 points - only 0.00% unknown
deleting segment 14 with 7 points - only 0.00% unknown
deleting segment 15 with 14 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 16 with 2 points - only 0.00% unknown
deleting segment 17 with 173 points - only 0.00% unknown
deleting segment 18 with 9 points - only 0.00% unknown
deleting segment 19 with 61 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 20 with 2 points - only 0.00% unknown
mean border=78.4, 771 (766) missing vertices, mean dist 0.4 [1.8 (%13.8)->0.8 (%86.2))]
%38 local maxima, %56 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=2.0, host=c133., nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
complete_dist_mat 0
rms 0
smooth_averages 0
remove_neg 0
ico_order 0
which_surface 0
target_radius 0.000000
nfields 0
scale 0.000000
desired_rms_height 0.000000
momentum 0.000000
nbhd_size 0
max_nbrs 0
niterations 25
nsurfaces 0
SURFACES 3
flags 0 (0)
use curv 0
no sulc 0
no rigid align 0
mris->nsize 2
mris->hemisphere 0
randomSeed 0

smoothing T1 volume with sigma = 1.000
vertex spacing 0.91 +- 0.31 (0.04-->14.62) (max @ vno 142514 --> 142515)
face area 0.33 +- 0.22 (0.00-->14.94)
mean absolute distance = 0.50 +- 0.80
4943 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
000: dt: 0.0000, sse=3206635.8, rms=9.498
001: dt: 0.5000, sse=1737314.1, rms=6.065 (36.147%)
002: dt: 0.5000, sse=1314774.0, rms=4.666 (23.055%)
003: dt: 0.5000, sse=1242254.5, rms=4.371 (6.339%)
004: dt: 0.5000, sse=1186985.2, rms=4.150 (5.047%)
rms = 4.19, time step reduction 1 of 3 to 0.250...
005: dt: 0.2500, sse=1052190.8, rms=3.508 (15.474%)
006: dt: 0.2500, sse=1009176.8, rms=3.222 (8.147%)
007: dt: 0.2500, sse=984440.5, rms=3.122 (3.117%)
rms = 3.08, time step reduction 2 of 3 to 0.125...
008: dt: 0.2500, sse=980218.9, rms=3.076 (1.459%)
009: dt: 0.1250, sse=969800.9, rms=3.024 (1.710%)
rms = 3.00, time step reduction 3 of 3 to 0.062...
010: dt: 0.1250, sse=967001.6, rms=3.003 (0.693%)
positioning took 1.9 minutes
inhibiting deformation at non-cortical midline structures...
deleting segment 0 with 42 points - only 0.00% unknown
deleting segment 1 with 123 points - only 0.00% unknown
deleting segment 2 with 7 points - only 0.00% unknown
deleting segment 3 with 69 points - only 0.00% unknown
removing 1 vertex label from ripped group
deleting segment 4 with 1 points - only 0.00% unknown
deleting segment 6 with 19 points - only 0.00% unknown
deleting segment 7 with 187 points - only 0.00% unknown
removing 1 vertex label from ripped group
deleting segment 9 with 1 points - only 0.00% unknown
removing 3 vertex label from ripped group
deleting segment 11 with 28 points - only 0.00% unknown
deleting segment 12 with 69 points - only 0.00% unknown
removing 3 vertex label from ripped group
deleting segment 13 with 3 points - only 0.00% unknown
deleting segment 14 with 5 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 15 with 2 points - only 0.00% unknown
deleting segment 16 with 63 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 17 with 2 points - only 0.00% unknown
deleting segment 18 with 149 points - only 0.00% unknown
deleting segment 19 with 10 points - only 0.00% unknown
deleting segment 20 with 6 points - only 0.00% unknown
deleting segment 21 with 30 points - only 0.00% unknown
mean border=82.2, 610 (385) missing vertices, mean dist -0.3 [0.6 (%69.2)->0.2 (%30.8))]
%59 local maxima, %36 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=1.0, host=c133., nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 0.500
vertex spacing 0.90 +- 0.31 (0.05-->15.31) (max @ vno 142514 --> 142515)
face area 0.35 +- 0.24 (0.00-->19.19)
mean absolute distance = 0.35 +- 0.53
4633 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
000: dt: 0.0000, sse=1732202.6, rms=5.952
011: dt: 0.5000, sse=1310238.8, rms=4.444 (25.339%)
012: dt: 0.5000, sse=1260655.1, rms=4.268 (3.957%)
013: dt: 0.5000, sse=1235270.9, rms=4.165 (2.419%)
rms = 4.25, time step reduction 1 of 3 to 0.250...
014: dt: 0.2500, sse=1083061.9, rms=3.441 (17.375%)
015: dt: 0.2500, sse=1031439.9, rms=3.129 (9.071%)
016: dt: 0.2500, sse=1013952.9, rms=3.035 (3.020%)
rms = 2.99, time step reduction 2 of 3 to 0.125...
017: dt: 0.2500, sse=1011531.4, rms=2.991 (1.422%)
018: dt: 0.1250, sse=997619.0, rms=2.934 (1.905%)
rms = 2.92, time step reduction 3 of 3 to 0.062...
019: dt: 0.1250, sse=1011984.3, rms=2.918 (0.542%)
positioning took 1.7 minutes
inhibiting deformation at non-cortical midline structures...
deleting segment 0 with 46 points - only 0.00% unknown
deleting segment 1 with 119 points - only 0.00% unknown
deleting segment 2 with 7 points - only 0.00% unknown
deleting segment 3 with 72 points - only 0.00% unknown
removing 1 vertex label from ripped group
deleting segment 5 with 19 points - only 0.00% unknown
deleting segment 6 with 211 points - only 0.00% unknown
removing 1 vertex label from ripped group
deleting segment 7 with 1 points - only 0.00% unknown
removing 3 vertex label from ripped group
deleting segment 9 with 27 points - only 0.00% unknown
deleting segment 10 with 72 points - only 0.00% unknown
deleting segment 11 with 6 points - only 0.00% unknown
deleting segment 12 with 12 points - only 16.67% unknown
deleting segment 13 with 69 points - only 0.00% unknown
deleting segment 14 with 9 points - only 0.00% unknown
removing 3 vertex label from ripped group
deleting segment 15 with 3 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 16 with 2 points - only 0.00% unknown
deleting segment 17 with 156 points - only 0.00% unknown
deleting segment 18 with 11 points - only 0.00% unknown
deleting segment 19 with 35 points - only 0.00% unknown
removing 4 vertex label from ripped group
deleting segment 20 with 4 points - only 0.00% unknown
mean border=85.0, 657 (297) missing vertices, mean dist -0.2 [0.4 (%70.3)->0.2 (%29.7))]
%76 local maxima, %18 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=0.5, host=c133., nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 0.250
vertex spacing 0.89 +- 0.31 (0.05-->15.31) (max @ vno 142514 --> 142515)
face area 0.34 +- 0.24 (0.00-->20.22)
mean absolute distance = 0.27 +- 0.43
4445 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
000: dt: 0.0000, sse=1423722.1, rms=4.944
020: dt: 0.5000, sse=1193687.5, rms=4.023 (18.624%)
rms = 4.16, time step reduction 1 of 3 to 0.250...
021: dt: 0.2500, sse=1066640.9, rms=3.430 (14.731%)
022: dt: 0.2500, sse=1014457.8, rms=3.167 (7.678%)
023: dt: 0.2500, sse=1006052.1, rms=3.083 (2.638%)
rms = 3.06, time step reduction 2 of 3 to 0.125...
024: dt: 0.2500, sse=1005446.2, rms=3.064 (0.637%)
025: dt: 0.1250, sse=982784.4, rms=3.001 (2.054%)
rms = 2.99, time step reduction 3 of 3 to 0.062...
026: dt: 0.1250, sse=979664.6, rms=2.987 (0.453%)
positioning took 1.3 minutes
inhibiting deformation at non-cortical midline structures...
deleting segment 0 with 40 points - only 0.00% unknown
deleting segment 1 with 122 points - only 0.00% unknown
deleting segment 2 with 7 points - only 0.00% unknown
deleting segment 3 with 72 points - only 0.00% unknown
removing 1 vertex label from ripped group
deleting segment 5 with 17 points - only 0.00% unknown
deleting segment 6 with 255 points - only 0.00% unknown
removing 3 vertex label from ripped group
deleting segment 8 with 28 points - only 0.00% unknown
deleting segment 9 with 72 points - only 0.00% unknown
deleting segment 10 with 7 points - only 0.00% unknown
deleting segment 11 with 68 points - only 0.00% unknown
deleting segment 12 with 12 points - only 0.00% unknown
removing 3 vertex label from ripped group
deleting segment 13 with 3 points - only 0.00% unknown
deleting segment 14 with 12 points - only 0.00% unknown
deleting segment 15 with 157 points - only 0.00% unknown
deleting segment 16 with 11 points - only 0.00% unknown
deleting segment 17 with 39 points - only 0.00% unknown
deleting segment 18 with 12 points - only 0.00% unknown
removing 4 vertex label from ripped group
deleting segment 19 with 4 points - only 0.00% unknown
mean border=85.9, 707 (258) missing vertices, mean dist -0.1 [0.3 (%57.2)->0.2 (%42.8))]
%82 local maxima, %13 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=0.2, host=c133., nav=0, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
writing white matter surface to /study2/emowrap/data/freesurfer/subjects/066/surf/lh.white...
writing smoothed curvature to lh.curv
000: dt: 0.0000, sse=1047513.9, rms=3.412
rms = 3.42, time step reduction 1 of 3 to 0.250...
027: dt: 0.2500, sse=987052.2, rms=3.090 (9.436%)
028: dt: 0.2500, sse=968122.1, rms=2.923 (5.410%)
rms = 2.93, time step reduction 2 of 3 to 0.125...
rms = 2.91, time step reduction 3 of 3 to 0.062...
029: dt: 0.1250, sse=957592.6, rms=2.910 (0.444%)
positioning took 0.8 minutes
generating cortex label...
15 non-cortical segments detected
only using segment with 7489 vertices
erasing segment 1 (vno[0] = 52467)
erasing segment 2 (vno[0] = 53550)
erasing segment 3 (vno[0] = 80532)
erasing segment 4 (vno[0] = 88100)
erasing segment 5 (vno[0] = 98591)
erasing segment 6 (vno[0] = 98859)
erasing segment 7 (vno[0] = 101112)
erasing segment 8 (vno[0] = 101149)
erasing segment 9 (vno[0] = 103488)
erasing segment 10 (vno[0] = 103603)
erasing segment 11 (vno[0] = 104755)
erasing segment 12 (vno[0] = 105682)
erasing segment 13 (vno[0] = 119983)
erasing segment 14 (vno[0] = 143515)
writing cortex label to /study2/emowrap/data/freesurfer/subjects/066/label/lh.cortex.label...
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/lh.curv
writing smoothed area to lh.area
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/lh.area
vertex spacing 0.90 +- 0.34 (0.02-->15.31) (max @ vno 142514 --> 142515)
face area 0.34 +- 0.23 (0.00-->19.74)
repositioning cortical surface to gray/csf boundary.
smoothing T1 volume with sigma = 2.000
averaging target values for 5 iterations...
inhibiting deformation at non-cortical midline structures...
removing 1 vertex label from ripped group
deleting segment 1 with 1 points - only 0.00% unknown
removing 3 vertex label from ripped group
deleting segment 4 with 5 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 5 with 2 points - only 0.00% unknown
deleting segment 6 with 23 points - only 0.00% unknown
deleting segment 7 with 23 points - only 0.00% unknown
deleting segment 8 with 8 points - only 0.00% unknown
deleting segment 9 with 19 points - only 0.00% unknown
smoothing surface for 5 iterations...
reading initial pial vertex positions from white.preaparc...
mean border=50.3, 748 (748) missing vertices, mean dist 1.9 [2.6 (%0.4)->2.4 (%99.6))]
%18 local maxima, %59 large gradients and %18 min vals, 83 gradients ignored
perforing initial smooth deformation to move away from white surface
tol=1.0e-04, sigma=2.0, host=c133., nav=16, nbrs=2, l_surf_repulse=1.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.05
000: dt: 0.0000, sse=36734388.0, rms=36.105
001: dt: 0.0500, sse=32796112.0, rms=34.074 (5.626%)
002: dt: 0.0500, sse=30003848.0, rms=32.557 (4.452%)
003: dt: 0.0500, sse=27862246.0, rms=31.344 (3.726%)
004: dt: 0.0500, sse=26124170.0, rms=30.324 (3.255%)
005: dt: 0.0500, sse=24660260.0, rms=29.437 (2.924%)
006: dt: 0.0500, sse=23386848.0, rms=28.644 (2.696%)
007: dt: 0.0500, sse=22253864.0, rms=27.918 (2.531%)
008: dt: 0.0500, sse=21231906.0, rms=27.248 (2.402%)
009: dt: 0.0500, sse=20298704.0, rms=26.621 (2.302%)
010: dt: 0.0500, sse=19439388.0, rms=26.030 (2.220%)
positioning took 1.6 minutes
mean border=50.1, 587 (441) missing vertices, mean dist 1.5 [1.5 (%0.7)->1.8 (%99.3))]
%19 local maxima, %59 large gradients and %18 min vals, 75 gradients ignored
tol=1.0e-04, sigma=2.0, host=c133., nav=16, nbrs=2, l_surf_repulse=1.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.05
000: dt: 0.0000, sse=20402260.0, rms=26.668
011: dt: 0.0500, sse=19594416.0, rms=26.115 (2.073%)
012: dt: 0.0500, sse=18843474.0, rms=25.590 (2.009%)
013: dt: 0.0500, sse=18142040.0, rms=25.090 (1.954%)
014: dt: 0.0500, sse=17486406.0, rms=24.613 (1.900%)
015: dt: 0.0500, sse=16872924.0, rms=24.159 (1.847%)
016: dt: 0.0500, sse=16297762.0, rms=23.724 (1.797%)
017: dt: 0.0500, sse=15757735.0, rms=23.309 (1.750%)
018: dt: 0.0500, sse=15250311.0, rms=22.912 (1.703%)
019: dt: 0.0500, sse=14772795.0, rms=22.532 (1.658%)
020: dt: 0.0500, sse=14322993.0, rms=22.168 (1.615%)
positioning took 1.6 minutes
mean border=49.9, 566 (363) missing vertices, mean dist 1.2 [0.5 (%2.2)->1.5 (%97.8))]
%19 local maxima, %59 large gradients and %17 min vals, 61 gradients ignored
tol=1.0e-04, sigma=2.0, host=c133., nav=16, nbrs=2, l_surf_repulse=1.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.05
000: dt: 0.0000, sse=14479770.0, rms=22.295
021: dt: 0.0500, sse=14031301.0, rms=21.929 (1.644%)
022: dt: 0.0500, sse=13610598.0, rms=21.579 (1.594%)
023: dt: 0.0500, sse=13207284.0, rms=21.238 (1.579%)
024: dt: 0.0500, sse=12826258.0, rms=20.911 (1.539%)
025: dt: 0.0500, sse=12467018.0, rms=20.598 (1.497%)
026: dt: 0.0500, sse=12129354.0, rms=20.300 (1.450%)
027: dt: 0.0500, sse=11804412.0, rms=20.008 (1.437%)
028: dt: 0.0500, sse=11488099.0, rms=19.720 (1.440%)
029: dt: 0.0500, sse=11180710.0, rms=19.436 (1.441%)
030: dt: 0.0500, sse=10882888.0, rms=19.156 (1.438%)
positioning took 1.6 minutes
mean border=49.8, 598 (318) missing vertices, mean dist 0.9 [0.2 (%12.3)->1.3 (%87.7))]
%19 local maxima, %59 large gradients and %17 min vals, 53 gradients ignored
tol=1.0e-04, sigma=2.0, host=c133., nav=16, nbrs=2, l_surf_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 1.000
averaging target values for 5 iterations...
000: dt: 0.0000, sse=11066613.0, rms=19.324
031: dt: 0.5000, sse=9024221.0, rms=17.312 (10.413%)
032: dt: 0.5000, sse=7456429.0, rms=15.584 (9.985%)
033: dt: 0.5000, sse=6187695.0, rms=14.037 (9.926%)
034: dt: 0.5000, sse=5130273.5, rms=12.593 (10.289%)
035: dt: 0.5000, sse=4323688.5, rms=11.375 (9.668%)
036: dt: 0.5000, sse=3656213.0, rms=10.251 (9.880%)
037: dt: 0.5000, sse=3167630.0, rms=9.350 (8.789%)
038: dt: 0.5000, sse=2790422.0, rms=8.583 (8.209%)
039: dt: 0.5000, sse=2571708.2, rms=8.112 (5.490%)
040: dt: 0.5000, sse=2407593.0, rms=7.731 (4.694%)
041: dt: 0.5000, sse=2331513.5, rms=7.554 (2.283%)
042: dt: 0.5000, sse=2265939.0, rms=7.390 (2.181%)
rms = 7.35, time step reduction 1 of 3 to 0.250...
043: dt: 0.5000, sse=2249929.8, rms=7.354 (0.485%)
044: dt: 0.2500, sse=1876934.4, rms=6.321 (14.039%)
045: dt: 0.2500, sse=1767028.1, rms=6.002 (5.046%)
rms = 6.04, time step reduction 2 of 3 to 0.125...
046: dt: 0.1250, sse=1704636.9, rms=5.805 (3.288%)
047: dt: 0.1250, sse=1622554.2, rms=5.533 (4.685%)
048: dt: 0.1250, sse=1606305.2, rms=5.477 (1.003%)
rms = 5.47, time step reduction 3 of 3 to 0.062...
049: dt: 0.1250, sse=1603329.4, rms=5.467 (0.198%)
positioning took 3.7 minutes
mean border=47.9, 1880 (208) missing vertices, mean dist 0.1 [0.1 (%45.6)->0.4 (%54.4))]
%36 local maxima, %42 large gradients and %17 min vals, 49 gradients ignored
tol=1.0e-04, sigma=1.0, host=c133., nav=8, nbrs=2, l_surf_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 0.500
averaging target values for 5 iterations...
000: dt: 0.0000, sse=2100757.0, rms=6.392
rms = 7.07, time step reduction 1 of 3 to 0.250...
050: dt: 0.2500, sse=1831727.8, rms=5.564 (12.960%)
051: dt: 0.2500, sse=1755667.4, rms=5.302 (4.702%)
rms = 5.38, time step reduction 2 of 3 to 0.125...
052: dt: 0.1250, sse=1701227.1, rms=5.107 (3.673%)
053: dt: 0.1250, sse=1629192.6, rms=4.841 (5.217%)
054: dt: 0.1250, sse=1603026.2, rms=4.742 (2.049%)
055: dt: 0.1250, sse=1588982.1, rms=4.689 (1.119%)
rms = 4.67, time step reduction 3 of 3 to 0.062...
056: dt: 0.1250, sse=1583838.8, rms=4.671 (0.385%)
positioning took 1.7 minutes
mean border=46.5, 2062 (178) missing vertices, mean dist 0.1 [0.1 (%47.4)->0.3 (%52.6))]
%51 local maxima, %27 large gradients and %16 min vals, 34 gradients ignored
tol=1.0e-04, sigma=0.5, host=c133., nav=4, nbrs=2, l_surf_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 0.250
averaging target values for 5 iterations...
000: dt: 0.0000, sse=1728472.1, rms=5.219
rms = 6.52, time step reduction 1 of 3 to 0.250...
057: dt: 0.2500, sse=1610769.4, rms=4.788 (8.253%)
058: dt: 0.2500, sse=1594492.5, rms=4.728 (1.242%)
rms = 4.86, time step reduction 2 of 3 to 0.125...
059: dt: 0.1250, sse=1570511.8, rms=4.633 (2.015%)
060: dt: 0.1250, sse=1542120.1, rms=4.522 (2.402%)
061: dt: 0.1250, sse=1528857.1, rms=4.470 (1.148%)
rms = 4.44, time step reduction 3 of 3 to 0.062...
062: dt: 0.1250, sse=1520417.6, rms=4.438 (0.715%)
positioning took 1.7 minutes
mean border=45.5, 3063 (171) missing vertices, mean dist 0.1 [0.1 (%50.0)->0.2 (%50.0))]
%55 local maxima, %23 large gradients and %16 min vals, 38 gradients ignored
tol=1.0e-04, sigma=0.2, host=c133., nav=2, nbrs=2, l_surf_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
writing pial surface to /study2/emowrap/data/freesurfer/subjects/066/surf/lh.pial...
writing smoothed curvature to lh.curv.pial
000: dt: 0.0000, sse=1568163.5, rms=4.632
rms = 5.87, time step reduction 1 of 3 to 0.250...
063: dt: 0.2500, sse=1513845.5, rms=4.410 (4.800%)
rms = 4.39, time step reduction 2 of 3 to 0.125...
064: dt: 0.2500, sse=1506527.1, rms=4.390 (0.436%)
065: dt: 0.1250, sse=1476696.8, rms=4.262 (2.917%)
066: dt: 0.1250, sse=1459238.6, rms=4.191 (1.670%)
rms = 4.18, time step reduction 3 of 3 to 0.062...
067: dt: 0.1250, sse=1455150.4, rms=4.177 (0.342%)
positioning took 1.3 minutes
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/lh.curv.pial
writing smoothed area to lh.area.pial
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/lh.area.pial
vertex spacing 1.01 +- 0.44 (0.10-->9.80) (max @ vno 143554 --> 143518)
face area 0.41 +- 0.34 (0.00-->11.13)
measuring cortical thickness...
writing cortical thickness estimate to 'thickness' file.
0 of 144925 vertices processed
25000 of 144925 vertices processed
50000 of 144925 vertices processed
75000 of 144925 vertices processed
100000 of 144925 vertices processed
125000 of 144925 vertices processed
0 of 144925 vertices processed
25000 of 144925 vertices processed
50000 of 144925 vertices processed
75000 of 144925 vertices processed
100000 of 144925 vertices processed
125000 of 144925 vertices processed
thickness calculation complete, 83:362 truncations.
49290 vertices at 0 distance
114281 vertices at 1 distance
76725 vertices at 2 distance
26581 vertices at 3 distance
7438 vertices at 4 distance
1997 vertices at 5 distance
657 vertices at 6 distance
283 vertices at 7 distance
150 vertices at 8 distance
70 vertices at 9 distance
54 vertices at 10 distance
26 vertices at 11 distance
18 vertices at 12 distance
11 vertices at 13 distance
7 vertices at 14 distance
19 vertices at 15 distance
17 vertices at 16 distance
15 vertices at 17 distance
8 vertices at 18 distance
12 vertices at 19 distance
5 vertices at 20 distance
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/lh.thickness
positioning took 25.3 minutes
#--------------------------------------------
#@# Make Pial Surf rh Wed Jan 15 03:38:58 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/scripts

 mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 066 rh

using white.preaparc starting white location...
using white.preaparc starting pial locations...
using aseg volume ../mri/aseg.presurf to prevent surfaces crossing the midline
INFO: assuming MGZ format for volumes.
using brain.finalsurfs as T1 volume...
$Id: mris_make_surfaces.c,v 1.164.2.4 2016/12/13 22:26:32 zkaufman Exp $
$Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/filled.mgz...
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/brain.finalsurfs.mgz...
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/../mri/aseg.presurf.mgz...
reading volume /study2/emowrap/data/freesurfer/subjects/066/mri/wm.mgz...
32301 bright wm thresholded.
4673 bright non-wm voxels segmented.
reading original surface position from /study2/emowrap/data/freesurfer/subjects/066/surf/rh.orig...
computing class statistics...
border white:    294484 voxels (1.76%)
border gray      333423 voxels (1.99%)
WM (96.0): 96.5 +- 9.0 [70.0 --> 110.0]
GM (70.0) : 67.9 +- 12.6 [30.0 --> 110.0]
setting MIN_GRAY_AT_WHITE_BORDER to 55.4 (was 70)
setting MAX_BORDER_WHITE to 110.0 (was 105)
setting MIN_BORDER_WHITE to 68.0 (was 85)
setting MAX_CSF to 42.7 (was 40)
setting MAX_GRAY to 92.0 (was 95)
setting MAX_GRAY_AT_CSF_BORDER to 55.4 (was 75)
setting MIN_GRAY_AT_CSF_BORDER to 30.1 (was 40)
using class modes intead of means, discounting robust sigmas....
intensity peaks found at WM=101+-8.7,    GM=68+-11.3
mean inside = 91.4, mean outside = 71.1
smoothing surface for 5 iterations...
reading initial white vertex positions from white.preaparc...
reading colortable from annotation file...
colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
repositioning cortical surface to gray/white boundary
smoothing T1 volume with sigma = 2.000
vertex spacing 0.88 +- 0.27 (0.04-->4.96) (max @ vno 151752 --> 151796)
face area 0.33 +- 0.17 (0.00-->5.40)
mean absolute distance = 0.85 +- 1.11
4376 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
inhibiting deformation at non-cortical midline structures...
deleting segment 0 with 29 points - only 0.00% unknown
removing 3 vertex label from ripped group
deleting segment 2 with 3 points - only 0.00% unknown
deleting segment 4 with 10 points - only 0.00% unknown
deleting segment 6 with 286 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 7 with 2 points - only 0.00% unknown
removing 3 vertex label from ripped group
deleting segment 8 with 3 points - only 0.00% unknown
deleting segment 9 with 7 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 10 with 2 points - only 0.00% unknown
deleting segment 11 with 6 points - only 0.00% unknown
deleting segment 12 with 16 points - only 0.00% unknown
deleting segment 13 with 26 points - only 0.00% unknown
deleting segment 14 with 9 points - only 0.00% unknown
removing 4 vertex label from ripped group
deleting segment 15 with 4 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 16 with 2 points - only 0.00% unknown
deleting segment 17 with 9 points - only 0.00% unknown
mean border=80.0, 484 (483) missing vertices, mean dist 0.3 [1.6 (%15.5)->0.7 (%84.5))]
%37 local maxima, %59 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=2.0, host=c133., nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
complete_dist_mat 0
rms 0
smooth_averages 0
remove_neg 0
ico_order 0
which_surface 0
target_radius 0.000000
nfields 0
scale 0.000000
desired_rms_height 0.000000
momentum 0.000000
nbhd_size 0
max_nbrs 0
niterations 25
nsurfaces 0
SURFACES 3
flags 0 (0)
use curv 0
no sulc 0
no rigid align 0
mris->nsize 2
mris->hemisphere 1
randomSeed 0

smoothing T1 volume with sigma = 1.000
vertex spacing 0.90 +- 0.26 (0.08-->4.98) (max @ vno 151752 --> 151796)
face area 0.33 +- 0.17 (0.00-->5.62)
mean absolute distance = 0.47 +- 0.77
5442 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
000: dt: 0.0000, sse=2770233.2, rms=8.343
001: dt: 0.5000, sse=1462076.4, rms=5.002 (40.040%)
002: dt: 0.5000, sse=1133716.4, rms=3.706 (25.914%)
003: dt: 0.5000, sse=1079221.2, rms=3.512 (5.242%)
004: dt: 0.5000, sse=1064194.8, rms=3.314 (5.626%)
rms = 3.43, time step reduction 1 of 3 to 0.250...
005: dt: 0.2500, sse=895947.9, rms=2.406 (27.403%)
006: dt: 0.2500, sse=841252.1, rms=1.990 (17.297%)
007: dt: 0.2500, sse=826763.9, rms=1.859 (6.580%)
rms = 1.83, time step reduction 2 of 3 to 0.125...
008: dt: 0.2500, sse=822246.8, rms=1.830 (1.561%)
009: dt: 0.1250, sse=818392.7, rms=1.745 (4.613%)
rms = 1.73, time step reduction 3 of 3 to 0.062...
010: dt: 0.1250, sse=812353.1, rms=1.728 (1.022%)
positioning took 2.0 minutes
inhibiting deformation at non-cortical midline structures...
deleting segment 0 with 39 points - only 0.00% unknown
removing 3 vertex label from ripped group
deleting segment 1 with 3 points - only 0.00% unknown
removing 3 vertex label from ripped group
deleting segment 3 with 10 points - only 0.00% unknown
deleting segment 4 with 228 points - only 0.00% unknown
deleting segment 5 with 9 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 6 with 2 points - only 0.00% unknown
deleting segment 7 with 10 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 8 with 2 points - only 0.00% unknown
removing 4 vertex label from ripped group
deleting segment 9 with 4 points - only 0.00% unknown
deleting segment 10 with 17 points - only 0.00% unknown
deleting segment 11 with 9 points - only 0.00% unknown
removing 4 vertex label from ripped group
deleting segment 12 with 4 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 13 with 2 points - only 0.00% unknown
removing 4 vertex label from ripped group
deleting segment 14 with 4 points - only 0.00% unknown
mean border=83.3, 265 (86) missing vertices, mean dist -0.3 [0.6 (%67.2)->0.2 (%32.8))]
%58 local maxima, %38 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=1.0, host=c133., nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 0.500
vertex spacing 0.89 +- 0.26 (0.04-->4.95) (max @ vno 151752 --> 151796)
face area 0.34 +- 0.18 (0.00-->5.81)
mean absolute distance = 0.34 +- 0.51
5098 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
000: dt: 0.0000, sse=1460041.9, rms=4.891
011: dt: 0.5000, sse=1106175.0, rms=3.351 (31.479%)
rms = 3.32, time step reduction 1 of 3 to 0.250...
012: dt: 0.5000, sse=1092871.1, rms=3.320 (0.938%)
013: dt: 0.2500, sse=911451.9, rms=2.059 (37.971%)
014: dt: 0.2500, sse=860515.6, rms=1.734 (15.800%)
015: dt: 0.2500, sse=851818.9, rms=1.653 (4.662%)
016: dt: 0.2500, sse=844269.2, rms=1.585 (4.127%)
rms = 1.57, time step reduction 2 of 3 to 0.125...
017: dt: 0.2500, sse=842829.0, rms=1.575 (0.618%)
018: dt: 0.1250, sse=848975.9, rms=1.469 (6.746%)
rms = 1.45, time step reduction 3 of 3 to 0.062...
019: dt: 0.1250, sse=824845.8, rms=1.454 (0.984%)
positioning took 1.7 minutes
inhibiting deformation at non-cortical midline structures...
deleting segment 0 with 40 points - only 0.00% unknown
removing 4 vertex label from ripped group
deleting segment 1 with 4 points - only 0.00% unknown
removing 3 vertex label from ripped group
deleting segment 3 with 8 points - only 0.00% unknown
deleting segment 4 with 227 points - only 0.00% unknown
deleting segment 5 with 8 points - only 0.00% unknown
deleting segment 6 with 32 points - only 0.00% unknown
deleting segment 7 with 10 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 8 with 2 points - only 0.00% unknown
removing 3 vertex label from ripped group
deleting segment 9 with 3 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 10 with 2 points - only 0.00% unknown
deleting segment 11 with 16 points - only 0.00% unknown
deleting segment 12 with 17 points - only 0.00% unknown
deleting segment 13 with 12 points - only 0.00% unknown
deleting segment 14 with 6 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 15 with 2 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 16 with 2 points - only 0.00% unknown
deleting segment 17 with 7 points - only 0.00% unknown
mean border=85.8, 295 (44) missing vertices, mean dist -0.2 [0.4 (%68.2)->0.2 (%31.8))]
%75 local maxima, %21 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=0.5, host=c133., nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 0.250
vertex spacing 0.88 +- 0.26 (0.04-->4.99) (max @ vno 60794 --> 58425)
face area 0.33 +- 0.17 (0.00-->5.45)
mean absolute distance = 0.27 +- 0.42
4732 vertices more than 2 sigmas from mean.
averaging target values for 5 iterations...
000: dt: 0.0000, sse=1170320.2, rms=3.849
020: dt: 0.5000, sse=1024866.5, rms=2.953 (23.275%)
rms = 3.16, time step reduction 1 of 3 to 0.250...
021: dt: 0.2500, sse=877033.2, rms=2.079 (29.609%)
022: dt: 0.2500, sse=831714.6, rms=1.645 (20.884%)
023: dt: 0.2500, sse=819347.1, rms=1.524 (7.313%)
rms = 1.50, time step reduction 2 of 3 to 0.125...
024: dt: 0.2500, sse=812569.3, rms=1.497 (1.816%)
025: dt: 0.1250, sse=799321.9, rms=1.375 (8.115%)
rms = 1.36, time step reduction 3 of 3 to 0.062...
026: dt: 0.1250, sse=795111.7, rms=1.358 (1.225%)
positioning took 1.5 minutes
inhibiting deformation at non-cortical midline structures...
deleting segment 0 with 37 points - only 0.00% unknown
deleting segment 1 with 7 points - only 0.00% unknown
removing 3 vertex label from ripped group
deleting segment 3 with 8 points - only 0.00% unknown
deleting segment 4 with 227 points - only 0.00% unknown
removing 3 vertex label from ripped group
deleting segment 5 with 3 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 6 with 2 points - only 0.00% unknown
deleting segment 7 with 30 points - only 0.00% unknown
deleting segment 8 with 11 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 9 with 2 points - only 0.00% unknown
removing 3 vertex label from ripped group
deleting segment 10 with 3 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 11 with 2 points - only 0.00% unknown
deleting segment 12 with 20 points - only 0.00% unknown
deleting segment 13 with 19 points - only 0.00% unknown
deleting segment 14 with 6 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 15 with 2 points - only 0.00% unknown
removing 2 vertex label from ripped group
deleting segment 16 with 2 points - only 0.00% unknown
deleting segment 17 with 7 points - only 0.00% unknown
mean border=86.6, 332 (31) missing vertices, mean dist -0.1 [0.3 (%55.4)->0.2 (%44.6))]
%80 local maxima, %16 large gradients and % 0 min vals, 0 gradients ignored
tol=1.0e-04, sigma=0.2, host=c133., nav=0, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
writing white matter surface to /study2/emowrap/data/freesurfer/subjects/066/surf/rh.white...
writing smoothed curvature to rh.curv
000: dt: 0.0000, sse=848953.0, rms=1.993
rms = 2.10, time step reduction 1 of 3 to 0.250...
027: dt: 0.2500, sse=791359.4, rms=1.443 (27.614%)
028: dt: 0.2500, sse=790785.8, rms=1.156 (19.857%)
rms = 1.20, time step reduction 2 of 3 to 0.125...
rms = 1.12, time step reduction 3 of 3 to 0.062...
029: dt: 0.1250, sse=770401.9, rms=1.120 (3.164%)
positioning took 0.8 minutes
generating cortex label...
16 non-cortical segments detected
only using segment with 7113 vertices
erasing segment 1 (vno[0] = 49424)
erasing segment 2 (vno[0] = 58232)
erasing segment 3 (vno[0] = 71886)
erasing segment 4 (vno[0] = 75347)
erasing segment 5 (vno[0] = 85972)
erasing segment 6 (vno[0] = 99175)
erasing segment 7 (vno[0] = 102731)
erasing segment 8 (vno[0] = 105203)
erasing segment 9 (vno[0] = 106204)
erasing segment 10 (vno[0] = 107297)
erasing segment 11 (vno[0] = 108327)
erasing segment 12 (vno[0] = 110473)
erasing segment 13 (vno[0] = 111400)
erasing segment 14 (vno[0] = 112216)
erasing segment 15 (vno[0] = 118452)
writing cortex label to /study2/emowrap/data/freesurfer/subjects/066/label/rh.cortex.label...
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/rh.curv
writing smoothed area to rh.area
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/rh.area
vertex spacing 0.88 +- 0.27 (0.05-->5.01) (max @ vno 58425 --> 60794)
face area 0.32 +- 0.17 (0.00-->5.29)
repositioning cortical surface to gray/csf boundary.
smoothing T1 volume with sigma = 2.000
averaging target values for 5 iterations...
inhibiting deformation at non-cortical midline structures...
removing 4 vertex label from ripped group
deleting segment 1 with 4 points - only 0.00% unknown
removing 1 vertex label from ripped group
removing 2 vertex label from ripped group
deleting segment 3 with 2 points - only 0.00% unknown
deleting segment 4 with 12 points - only 0.00% unknown
smoothing surface for 5 iterations...
reading initial pial vertex positions from white.preaparc...
mean border=52.5, 456 (456) missing vertices, mean dist 1.9 [1.3 (%0.1)->2.3 (%99.9))]
%19 local maxima, %59 large gradients and %18 min vals, 114 gradients ignored
perforing initial smooth deformation to move away from white surface
tol=1.0e-04, sigma=2.0, host=c133., nav=16, nbrs=2, l_surf_repulse=1.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.05
000: dt: 0.0000, sse=35647668.0, rms=34.584
001: dt: 0.0500, sse=31698588.0, rms=32.570 (5.823%)
002: dt: 0.0500, sse=28873452.0, rms=31.049 (4.669%)
003: dt: 0.0500, sse=26697710.0, rms=29.825 (3.943%)
004: dt: 0.0500, sse=24930412.0, rms=28.792 (3.462%)
005: dt: 0.0500, sse=23433234.0, rms=27.888 (3.142%)
006: dt: 0.0500, sse=22132122.0, rms=27.077 (2.908%)
007: dt: 0.0500, sse=20976876.0, rms=26.336 (2.736%)
008: dt: 0.0500, sse=19935302.0, rms=25.649 (2.606%)
009: dt: 0.0500, sse=18986264.0, rms=25.007 (2.502%)
010: dt: 0.0500, sse=18114194.0, rms=24.403 (2.418%)
positioning took 1.8 minutes
mean border=52.3, 261 (191) missing vertices, mean dist 1.5 [0.4 (%0.2)->1.8 (%99.8))]
%20 local maxima, %59 large gradients and %17 min vals, 114 gradients ignored
tol=1.0e-04, sigma=2.0, host=c133., nav=16, nbrs=2, l_surf_repulse=1.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.05
000: dt: 0.0000, sse=19092666.0, rms=25.063
011: dt: 0.0500, sse=18276434.0, rms=24.500 (2.247%)
012: dt: 0.0500, sse=17519670.0, rms=23.966 (2.180%)
013: dt: 0.0500, sse=16815808.0, rms=23.458 (2.118%)
014: dt: 0.0500, sse=16161664.0, rms=22.976 (2.055%)
015: dt: 0.0500, sse=15552775.0, rms=22.518 (1.993%)
016: dt: 0.0500, sse=14986420.0, rms=22.084 (1.930%)
017: dt: 0.0500, sse=14457728.0, rms=21.670 (1.873%)
018: dt: 0.0500, sse=13965666.0, rms=21.278 (1.810%)
019: dt: 0.0500, sse=13505337.0, rms=20.905 (1.756%)
020: dt: 0.0500, sse=13074106.0, rms=20.548 (1.704%)
positioning took 1.8 minutes
mean border=52.1, 241 (125) missing vertices, mean dist 1.2 [0.1 (%1.9)->1.4 (%98.1))]
%20 local maxima, %59 large gradients and %17 min vals, 124 gradients ignored
tol=1.0e-04, sigma=2.0, host=c133., nav=16, nbrs=2, l_surf_repulse=1.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.05
000: dt: 0.0000, sse=13264542.0, rms=20.707
021: dt: 0.0500, sse=12833514.0, rms=20.348 (1.735%)
022: dt: 0.0500, sse=12432622.0, rms=20.008 (1.671%)
023: dt: 0.0500, sse=12051145.0, rms=19.679 (1.645%)
024: dt: 0.0500, sse=11694808.0, rms=19.366 (1.588%)
025: dt: 0.0500, sse=11361367.0, rms=19.069 (1.534%)
026: dt: 0.0500, sse=11049836.0, rms=18.787 (1.478%)
027: dt: 0.0500, sse=10753070.0, rms=18.514 (1.451%)
028: dt: 0.0500, sse=10463854.0, rms=18.245 (1.456%)
029: dt: 0.0500, sse=10182975.0, rms=17.979 (1.457%)
030: dt: 0.0500, sse=9910819.0, rms=17.718 (1.454%)
positioning took 1.8 minutes
mean border=52.0, 269 (103) missing vertices, mean dist 0.9 [0.1 (%13.6)->1.3 (%86.4))]
%21 local maxima, %59 large gradients and %16 min vals, 88 gradients ignored
tol=1.0e-04, sigma=2.0, host=c133., nav=16, nbrs=2, l_surf_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 1.000
averaging target values for 5 iterations...
000: dt: 0.0000, sse=10112906.0, rms=17.908
031: dt: 0.5000, sse=8202909.0, rms=15.983 (10.751%)
032: dt: 0.5000, sse=6744094.0, rms=14.329 (10.349%)
033: dt: 0.5000, sse=5582985.5, rms=12.871 (10.177%)
034: dt: 0.5000, sse=4611028.0, rms=11.496 (10.683%)
035: dt: 0.5000, sse=3888303.0, rms=10.364 (9.844%)
036: dt: 0.5000, sse=3269020.0, rms=9.274 (10.520%)
037: dt: 0.5000, sse=2832931.2, rms=8.433 (9.072%)
038: dt: 0.5000, sse=2509683.0, rms=7.738 (8.232%)
039: dt: 0.5000, sse=2343432.5, rms=7.365 (4.824%)
040: dt: 0.5000, sse=2222115.8, rms=7.069 (4.025%)
041: dt: 0.5000, sse=2182532.0, rms=6.976 (1.305%)
042: dt: 0.5000, sse=2120812.8, rms=6.815 (2.315%)
rms = 6.81, time step reduction 1 of 3 to 0.250...
043: dt: 0.5000, sse=2116562.2, rms=6.809 (0.079%)
044: dt: 0.2500, sse=1730934.1, rms=5.704 (16.231%)
045: dt: 0.2500, sse=1619485.8, rms=5.363 (5.981%)
rms = 5.40, time step reduction 2 of 3 to 0.125...
046: dt: 0.1250, sse=1558665.6, rms=5.159 (3.809%)
047: dt: 0.1250, sse=1479497.9, rms=4.878 (5.436%)
048: dt: 0.1250, sse=1458878.4, rms=4.803 (1.545%)
rms = 4.79, time step reduction 3 of 3 to 0.062...
049: dt: 0.1250, sse=1456500.1, rms=4.793 (0.204%)
positioning took 4.1 minutes
mean border=49.9, 1680 (57) missing vertices, mean dist 0.1 [0.1 (%43.3)->0.4 (%56.7))]
%39 local maxima, %39 large gradients and %16 min vals, 39 gradients ignored
tol=1.0e-04, sigma=1.0, host=c133., nav=8, nbrs=2, l_surf_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 0.500
averaging target values for 5 iterations...
000: dt: 0.0000, sse=2016076.2, rms=5.979
rms = 6.47, time step reduction 1 of 3 to 0.250...
050: dt: 0.2500, sse=1731099.4, rms=5.083 (14.987%)
051: dt: 0.2500, sse=1609757.2, rms=4.644 (8.634%)
rms = 4.68, time step reduction 2 of 3 to 0.125...
052: dt: 0.1250, sse=1556670.0, rms=4.438 (4.432%)
053: dt: 0.1250, sse=1482300.8, rms=4.136 (6.808%)
054: dt: 0.1250, sse=1452390.1, rms=4.010 (3.058%)
rms = 3.96, time step reduction 3 of 3 to 0.062...
055: dt: 0.1250, sse=1440597.8, rms=3.960 (1.245%)
positioning took 1.7 minutes
mean border=48.1, 1871 (55) missing vertices, mean dist 0.1 [0.1 (%43.4)->0.3 (%56.6))]
%54 local maxima, %25 large gradients and %16 min vals, 46 gradients ignored
tol=1.0e-04, sigma=0.5, host=c133., nav=4, nbrs=2, l_surf_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
smoothing T1 volume with sigma = 0.250
averaging target values for 5 iterations...
000: dt: 0.0000, sse=1664707.6, rms=4.855
rms = 6.03, time step reduction 1 of 3 to 0.250...
056: dt: 0.2500, sse=1513235.2, rms=4.281 (11.826%)
057: dt: 0.2500, sse=1474559.8, rms=4.122 (3.706%)
rms = 4.21, time step reduction 2 of 3 to 0.125...
058: dt: 0.1250, sse=1447426.6, rms=4.005 (2.844%)
059: dt: 0.1250, sse=1411968.6, rms=3.850 (3.862%)
060: dt: 0.1250, sse=1393790.0, rms=3.769 (2.095%)
rms = 3.73, time step reduction 3 of 3 to 0.062...
061: dt: 0.1250, sse=1385636.1, rms=3.733 (0.951%)
positioning took 1.7 minutes
mean border=47.1, 2890 (53) missing vertices, mean dist 0.1 [0.1 (%47.5)->0.2 (%52.5))]
%57 local maxima, %22 large gradients and %16 min vals, 60 gradients ignored
tol=1.0e-04, sigma=0.2, host=c133., nav=2, nbrs=2, l_surf_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
mom=0.00, dt=0.50
writing pial surface to /study2/emowrap/data/freesurfer/subjects/066/surf/rh.pial...
writing smoothed curvature to rh.curv.pial
000: dt: 0.0000, sse=1443523.8, rms=3.998
rms = 5.33, time step reduction 1 of 3 to 0.250...
062: dt: 0.2500, sse=1384661.0, rms=3.731 (6.682%)
rms = 3.69, time step reduction 2 of 3 to 0.125...
063: dt: 0.2500, sse=1373757.4, rms=3.690 (1.087%)
064: dt: 0.1250, sse=1344218.6, rms=3.546 (3.914%)
065: dt: 0.1250, sse=1326714.0, rms=3.464 (2.311%)
rms = 3.44, time step reduction 3 of 3 to 0.062...
066: dt: 0.1250, sse=1320964.8, rms=3.439 (0.730%)
positioning took 1.3 minutes
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/rh.curv.pial
writing smoothed area to rh.area.pial
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/rh.area.pial
vertex spacing 0.99 +- 0.42 (0.06-->8.31) (max @ vno 61032 --> 150856)
face area 0.39 +- 0.30 (0.00-->6.74)
measuring cortical thickness...
writing cortical thickness estimate to 'thickness' file.
0 of 152355 vertices processed
25000 of 152355 vertices processed
50000 of 152355 vertices processed
75000 of 152355 vertices processed
100000 of 152355 vertices processed
125000 of 152355 vertices processed
150000 of 152355 vertices processed
0 of 152355 vertices processed
25000 of 152355 vertices processed
50000 of 152355 vertices processed
75000 of 152355 vertices processed
100000 of 152355 vertices processed
125000 of 152355 vertices processed
150000 of 152355 vertices processed
thickness calculation complete, 80:446 truncations.
53419 vertices at 0 distance
123253 vertices at 1 distance
78354 vertices at 2 distance
26880 vertices at 3 distance
7653 vertices at 4 distance
2194 vertices at 5 distance
693 vertices at 6 distance
212 vertices at 7 distance
93 vertices at 8 distance
38 vertices at 9 distance
21 vertices at 10 distance
17 vertices at 11 distance
11 vertices at 12 distance
1 vertices at 13 distance
3 vertices at 14 distance
7 vertices at 15 distance
8 vertices at 16 distance
9 vertices at 17 distance
9 vertices at 18 distance
6 vertices at 19 distance
3 vertices at 20 distance
writing curvature file /study2/emowrap/data/freesurfer/subjects/066/surf/rh.thickness
positioning took 26.8 minutes
#--------------------------------------------
#@# Surf Volume lh Wed Jan 15 04:05:47 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/surf
/study2/emowrap/data/freesurfer/subjects/066/surf
mris_calc -o lh.area.mid lh.area add lh.area.pial
Saving result to 'lh.area.mid' (type = MRI_CURV_FILE)                       [ ok ]
mris_calc -o lh.area.mid lh.area.mid div 2
Saving result to 'lh.area.mid' (type = MRI_CURV_FILE)                       [ ok ]
mris_convert --volume 066 lh /study2/emowrap/data/freesurfer/subjects/066/surf/lh.volume
masking with /study2/emowrap/data/freesurfer/subjects/066/label/lh.cortex.label
Total face volume 242017
Total vertex volume 238685 (mask=0)
#@# 066 lh 238685

vertexvol Done
#--------------------------------------------
#@# Surf Volume rh Wed Jan 15 04:05:53 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/surf
/study2/emowrap/data/freesurfer/subjects/066/surf
mris_calc -o rh.area.mid rh.area add rh.area.pial
Saving result to 'rh.area.mid' (type = MRI_CURV_FILE)                       [ ok ]
mris_calc -o rh.area.mid rh.area.mid div 2
Saving result to 'rh.area.mid' (type = MRI_CURV_FILE)                       [ ok ]
mris_convert --volume 066 rh /study2/emowrap/data/freesurfer/subjects/066/surf/rh.volume
masking with /study2/emowrap/data/freesurfer/subjects/066/label/rh.cortex.label
Total face volume 245262
Total vertex volume 241762 (mask=0)
#@# 066 rh 241762

vertexvol Done
#--------------------------------------------
#@# Cortical ribbon mask Wed Jan 15 04:06:00 CST 2020
/study2/emowrap/data/freesurfer/subjects/066/mri

 mris_volmask --aseg_name aseg.presurf --label_left_white 2 --label_left_ribbon 3 --label_right_white 41 --label_right_ribbon 42 --save_ribbon 066

SUBJECTS_DIR is /study2/emowrap/data/freesurfer/subjects



New invocation of recon-all



Wed Jan 15 05:01:22 CST 2020
/study2/emowrap/data/freesurfer/subjects/066
/apps/x86_64_sci7/freesurfer-latest/bin/recon-all
-subjid 066 -autorecon2-cp -autorecon3
subjid 066
setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-latest
Actual FREESURFER_HOME /apps/freesurfer-6.0.0/x86_64_sci7
build-stamp.txt: freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c
Linux c133.keck.waisman.wisc.edu 3.10.0-1062.9.1.el7.x86_64 #1 SMP Thu Dec 5 14:44:59 CST 2019 x86_64 x86_64 x86_64 GNU/Linux
cputime      unlimited
filesize     unlimited
datasize     3145728 kbytes
stacksize    unlimited
coredumpsize 0 kbytes
memoryuse    3145728 kbytes
vmemoryuse   3145728 kbytes
descriptors  32767
memorylocked 64 kbytes
maxproc      1030757
maxlocks     unlimited
maxsignal    1030757
maxmessage   819200
maxnice      0
maxrtprio    0
maxrttime    unlimited

              total        used        free      shared  buff/cache   available
Mem:      263971172     4856056   190638132      148316    68476984   258166676
Swap:      50331644       11080    50320564

########################################
program versions used
$Id: recon-all,v 1.580.2.16 2017/01/18 14:11:24 zkaufman Exp $
$Id: mri_motion_correct.fsl,v 1.15 2016/02/16 17:17:20 zkaufman Exp $
mri_convert.bin -all-info
ProgramName: mri_convert.bin  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/15-11:01:22-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
FLIRT version 5.5
$Id: talairach_avi,v 1.13 2015/12/23 04:25:17 greve Exp $
mri_convert.bin --version
stable6
ProgramName: tkregister2_cmdl  ProgramArguments: --all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/15-11:01:22-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: tkregister2.c,v 1.132.2.1 2016/08/02 21:17:29 greve Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
Program nu_correct, built from:
Package MNI N3, version 1.12.0, compiled by nicks@terrier (x86_64-unknown-linux-gnu) on 2015-06-19 at 01:25:34
ProgramName: mri_make_uchar  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/15-11:01:23-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_make_uchar.c,v 1.4 2011/03/02 00:04:14 nicks Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_normalize  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/15-11:01:23-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_normalize.c,v 1.88.2.3 2016/12/27 16:47:13 zkaufman Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_watershed  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/15-11:01:23-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_watershed.cpp,v 1.103 2016/06/17 18:00:49 zkaufman Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_gcut  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/15-11:01:23-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_gcut.cpp,v 1.14 2011/03/02 00:04:16 nicks Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_segment  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/15-11:01:23-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_segment.c,v 1.43.2.1 2016/10/27 22:24:52 zkaufman Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_label2label.bin  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/15-11:01:23-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_label2label.c,v 1.48.2.2 2016/12/12 14:15:26 zkaufman Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_em_register  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/15-11:01:23-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_em_register.c,v 1.105.2.1 2016/10/27 22:25:10 zkaufman Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_ca_normalize  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/15-11:01:23-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_ca_normalize.c,v 1.67.2.2 2016/10/27 22:25:09 zkaufman Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_ca_register  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/15-11:01:23-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_ca_register.c,v 1.96.2.3 2016/10/27 22:25:10 zkaufman Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_ca_label  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/15-11:01:23-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_ca_label.c,v 1.113.2.2 2016/10/27 22:25:10 zkaufman Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_pretess  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/15-11:01:23-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_pretess.c,v 1.22 2013/08/30 18:12:25 mreuter Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_fill  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/15-11:01:23-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_fill.c,v 1.119 2011/10/25 14:09:58 fischl Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_tessellate  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/15-11:01:23-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_tessellate.c,v 1.38.2.1 2016/07/26 18:46:38 zkaufman Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_concatenate_lta.bin  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/15-11:01:23-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_concatenate_lta.c,v 1.16 2015/11/21 00:06:20 greve Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_normalize_tp2  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/15-11:01:23-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_normalize_tp2.c,v 1.8 2011/03/02 00:04:23 nicks Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_smooth  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/15-11:01:23-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_smooth.c,v 1.30 2014/01/21 18:48:21 fischl Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_inflate  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/15-11:01:23-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_inflate.c,v 1.45 2016/01/20 23:42:15 greve Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_curvature  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/15-11:01:23-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_curvature.c,v 1.31 2011/03/02 00:04:30 nicks Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_sphere  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/15-11:01:23-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_sphere.c,v 1.61 2016/01/20 23:42:15 greve Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_fix_topology  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/15-11:01:23-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_fix_topology.c,v 1.50.2.1 2016/10/27 22:25:58 zkaufman Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_topo_fixer  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/15-11:01:23-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_topo_fixer.cpp,v 1.29 2011/03/02 00:04:34 nicks Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_ca_label  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/15-11:01:23-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_ca_label.c,v 1.37 2014/02/04 17:46:42 fischl Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_euler_number  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/15-11:01:23-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_euler_number.c,v 1.10 2013/01/14 22:39:14 greve Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_make_surfaces  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/15-11:01:23-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_make_surfaces.c,v 1.164.2.4 2016/12/13 22:26:32 zkaufman Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_register  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/15-11:01:23-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_register.c,v 1.63 2016/01/20 23:43:04 greve Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_volmask  ProgramArguments: --all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/15-11:01:23-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_volmask.cpp,v 1.26.2.2 2016/11/18 20:05:18 zkaufman Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_anatomical_stats  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/15-11:01:23-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_anatomical_stats.c,v 1.79 2016/03/14 15:15:34 greve Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mrisp_paint  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/15-11:01:23-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mrisp_paint.c,v 1.12 2016/03/22 14:47:57 fischl Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_curvature_stats  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/15-11:01:23-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_curvature_stats.c,v 1.65 2015/06/04 20:50:51 nicks Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_calc  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/15-11:01:23-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_calc.c,v 1.54.2.1 2016/09/27 18:51:28 greve Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
$Id: mri_robust_register.cpp,v 1.77 2016/01/20 23:36:17 greve Exp $

ProgramName: mri_robust_register.bin  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/15-11:01:23-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_robust_register.cpp,v 1.77 2016/01/20 23:36:17 greve Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
$Id: mri_robust_template.cpp,v 1.54 2016/05/05 21:17:08 mreuter Exp $

ProgramName: mri_robust_template  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/15-11:01:23-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_robust_template.cpp,v 1.54 2016/05/05 21:17:08 mreuter Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_and  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/15-11:01:23-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_and.c,v 1.4 2011/03/02 00:04:13 nicks Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_or  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/15-11:01:23-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_or.c,v 1.5 2013/03/20 15:03:29 lzollei Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_fuse_segmentations  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/15-11:01:23-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_fuse_segmentations.c,v 1.8 2011/03/02 00:04:15 nicks Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_segstats  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/15-11:01:23-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_segstats.c,v 1.121 2016/05/31 17:27:11 greve Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_relabel_hypointensities  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/15-11:01:23-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_relabel_hypointensities.c,v 1.13 2015/05/15 18:44:10 nicks Exp $  User: quinlan  Machine: c133.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
#######################################
GCADIR /apps/x86_64_sci7/freesurfer-latest/average
GCA RB_all_2016-05-10.vc700.gca
GCASkull RB_all_withskull_2016-05-10.vc700.gca
AvgCurvTif folding.atlas.acfb40.noaparc.i12.2016-08-02.tif
GCSDIR /apps/x86_64_sci7/freesurfer-latest/average
GCS DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs
#######################################



New invocation of recon-all



Tue Jan 21 13:53:18 CST 2020
/study2/emowrap/data/freesurfer/subjects/066
/apps/x86_64_sci7/freesurfer-6.0.0/bin/recon-all
-subjid 066 -autorecon2-wm -autorecon3
subjid 066
setenv SUBJECTS_DIR /study2/emowrap/data/freesurfer/subjects
FREESURFER_HOME /apps/x86_64_sci7/freesurfer-6.0.0
Actual FREESURFER_HOME /apps/freesurfer-6.0.0/x86_64_sci7
build-stamp.txt: freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c
Linux c139.keck.waisman.wisc.edu 3.10.0-1062.9.1.el7.x86_64 #1 SMP Thu Dec 5 14:44:59 CST 2019 x86_64 x86_64 x86_64 GNU/Linux
cputime      unlimited
filesize     unlimited
datasize     3145728 kbytes
stacksize    unlimited
coredumpsize 0 kbytes
memoryuse    3145728 kbytes
vmemoryuse   3145728 kbytes
descriptors  32767
memorylocked 64 kbytes
maxproc      1030757
maxlocks     unlimited
maxsignal    1030757
maxmessage   819200
maxnice      0
maxrtprio    0
maxrttime    unlimited

              total        used        free      shared  buff/cache   available
Mem:      263971176    55266784   138427056      197696    70277336   207706564
Swap:     268435448       60260   268375188

########################################
program versions used
$Id: recon-all,v 1.580.2.16 2017/01/18 14:11:24 zkaufman Exp $
$Id: mri_motion_correct.fsl,v 1.15 2016/02/16 17:17:20 zkaufman Exp $
mri_convert.bin -all-info
ProgramName: mri_convert.bin  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/21-19:53:18-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
FLIRT version 5.5
$Id: talairach_avi,v 1.13 2015/12/23 04:25:17 greve Exp $
mri_convert.bin --version
stable6
ProgramName: tkregister2_cmdl  ProgramArguments: --all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/21-19:53:18-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: tkregister2.c,v 1.132.2.1 2016/08/02 21:17:29 greve Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
Program nu_correct, built from:
Package MNI N3, version 1.12.0, compiled by nicks@terrier (x86_64-unknown-linux-gnu) on 2015-06-19 at 01:25:34
ProgramName: mri_make_uchar  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/21-19:53:19-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_make_uchar.c,v 1.4 2011/03/02 00:04:14 nicks Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_normalize  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/21-19:53:19-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_normalize.c,v 1.88.2.3 2016/12/27 16:47:13 zkaufman Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_watershed  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/21-19:53:19-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_watershed.cpp,v 1.103 2016/06/17 18:00:49 zkaufman Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_gcut  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/21-19:53:19-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_gcut.cpp,v 1.14 2011/03/02 00:04:16 nicks Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_segment  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/21-19:53:19-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_segment.c,v 1.43.2.1 2016/10/27 22:24:52 zkaufman Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_label2label.bin  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/21-19:53:19-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_label2label.c,v 1.48.2.2 2016/12/12 14:15:26 zkaufman Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_em_register  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/21-19:53:19-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_em_register.c,v 1.105.2.1 2016/10/27 22:25:10 zkaufman Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_ca_normalize  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/21-19:53:19-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_ca_normalize.c,v 1.67.2.2 2016/10/27 22:25:09 zkaufman Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_ca_register  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/21-19:53:19-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_ca_register.c,v 1.96.2.3 2016/10/27 22:25:10 zkaufman Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_ca_label  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/21-19:53:19-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_ca_label.c,v 1.113.2.2 2016/10/27 22:25:10 zkaufman Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_pretess  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/21-19:53:19-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_pretess.c,v 1.22 2013/08/30 18:12:25 mreuter Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_fill  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/21-19:53:19-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_fill.c,v 1.119 2011/10/25 14:09:58 fischl Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_tessellate  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/21-19:53:19-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_tessellate.c,v 1.38.2.1 2016/07/26 18:46:38 zkaufman Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_concatenate_lta.bin  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/21-19:53:19-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_concatenate_lta.c,v 1.16 2015/11/21 00:06:20 greve Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_normalize_tp2  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/21-19:53:19-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_normalize_tp2.c,v 1.8 2011/03/02 00:04:23 nicks Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_smooth  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/21-19:53:19-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_smooth.c,v 1.30 2014/01/21 18:48:21 fischl Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_inflate  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/21-19:53:19-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_inflate.c,v 1.45 2016/01/20 23:42:15 greve Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_curvature  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/21-19:53:19-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_curvature.c,v 1.31 2011/03/02 00:04:30 nicks Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_sphere  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/21-19:53:19-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_sphere.c,v 1.61 2016/01/20 23:42:15 greve Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_fix_topology  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/21-19:53:19-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_fix_topology.c,v 1.50.2.1 2016/10/27 22:25:58 zkaufman Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_topo_fixer  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/21-19:53:19-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_topo_fixer.cpp,v 1.29 2011/03/02 00:04:34 nicks Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_ca_label  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/21-19:53:19-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_ca_label.c,v 1.37 2014/02/04 17:46:42 fischl Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_euler_number  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/21-19:53:19-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_euler_number.c,v 1.10 2013/01/14 22:39:14 greve Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_make_surfaces  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/21-19:53:19-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_make_surfaces.c,v 1.164.2.4 2016/12/13 22:26:32 zkaufman Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_register  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/21-19:53:19-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_register.c,v 1.63 2016/01/20 23:43:04 greve Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_volmask  ProgramArguments: --all-info  ProgramVersion: $Name:  $  TimeStamp: 2020/01/21-19:53:19-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_volmask.cpp,v 1.26.2.2 2016/11/18 20:05:18 zkaufman Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_anatomical_stats  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/21-19:53:19-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_anatomical_stats.c,v 1.79 2016/03/14 15:15:34 greve Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mrisp_paint  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/21-19:53:19-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mrisp_paint.c,v 1.12 2016/03/22 14:47:57 fischl Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_curvature_stats  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/21-19:53:19-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_curvature_stats.c,v 1.65 2015/06/04 20:50:51 nicks Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mris_calc  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/21-19:53:19-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mris_calc.c,v 1.54.2.1 2016/09/27 18:51:28 greve Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
$Id: mri_robust_register.cpp,v 1.77 2016/01/20 23:36:17 greve Exp $

ProgramName: mri_robust_register.bin  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/21-19:53:19-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_robust_register.cpp,v 1.77 2016/01/20 23:36:17 greve Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
$Id: mri_robust_template.cpp,v 1.54 2016/05/05 21:17:08 mreuter Exp $

ProgramName: mri_robust_template  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/21-19:53:19-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_robust_template.cpp,v 1.54 2016/05/05 21:17:08 mreuter Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_and  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/21-19:53:19-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_and.c,v 1.4 2011/03/02 00:04:13 nicks Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_or  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/21-19:53:19-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_or.c,v 1.5 2013/03/20 15:03:29 lzollei Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_fuse_segmentations  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/21-19:53:20-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_fuse_segmentations.c,v 1.8 2011/03/02 00:04:15 nicks Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_segstats  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/21-19:53:20-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_segstats.c,v 1.121 2016/05/31 17:27:11 greve Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
ProgramName: mri_relabel_hypointensities  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2020/01/21-19:53:20-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_relabel_hypointensities.c,v 1.13 2015/05/15 18:44:10 nicks Exp $  User: quinlan  Machine: c139.keck.waisman.wisc.edu  Platform: Linux  PlatformVersion: 3.10.0-1062.9.1.el7.x86_64  CompilerName: GCC  CompilerVersion: 40400
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GCADIR /apps/x86_64_sci7/freesurfer-6.0.0/average
GCA RB_all_2016-05-10.vc700.gca
GCASkull RB_all_withskull_2016-05-10.vc700.gca
AvgCurvTif folding.atlas.acfb40.noaparc.i12.2016-08-02.tif
GCSDIR /apps/x86_64_sci7/freesurfer-6.0.0/average
GCS DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs
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